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CHECK report for flowWorkspace on malbec1

This page was generated on 2018-04-12 13:09:36 -0400 (Thu, 12 Apr 2018).

Package 500/1472HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowWorkspace 3.26.9
Greg Finak ,Mike Jiang
Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018)
URL: https://git.bioconductor.org/packages/flowWorkspace
Branch: RELEASE_3_6
Last Commit: 8cbfbca
Last Changed Date: 2018-04-04 13:28:25 -0400 (Wed, 04 Apr 2018)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
veracruz1 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: flowWorkspace
Version: 3.26.9
Command: /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings flowWorkspace_3.26.9.tar.gz
StartedAt: 2018-04-11 23:34:04 -0400 (Wed, 11 Apr 2018)
EndedAt: 2018-04-11 23:37:58 -0400 (Wed, 11 Apr 2018)
EllapsedTime: 233.4 seconds
RetCode: 0
Status:  OK 
CheckDir: flowWorkspace.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.6-bioc/R/bin/R CMD check --no-vignettes --timings flowWorkspace_3.26.9.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.6-bioc/meat/flowWorkspace.Rcheck’
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowWorkspace/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowWorkspace’ version ‘3.26.9’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘flowWorkspace’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 56.2Mb
  sub-directories of 1Mb or more:
    doc    1.4Mb
    lib   27.0Mb
    libs  27.1Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Versioned 'LinkingTo' values for
  ‘BH’ ‘cytolib’
are only usable in R >= 3.0.2
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
  ‘RBGL’ ‘grDevices’ ‘graphics’
  All declared Imports should be used.
Unexported objects imported by ':::' calls:
  ‘flowCore:::.estimateLogicle’ ‘flowCore:::checkClass’
  ‘flowCore:::copyFlowSet’ ‘flowCore:::guid’
  ‘flowCore:::logicle_transform’ ‘graph:::.makeEdgeKeys’
  ‘lattice:::updateList’ ‘ncdfFlow:::.isValidSamples’
  ‘stats:::.splinefun’
  See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
getGate,GatingSetList-character: warning in unlist(res, recur = FALSE):
  partial argument match of 'recur' to 'recursive'
.addGatingHierarchies: no visible global function definition for ‘is’
.addGatingHierarchies : <anonymous>: no visible global function
  definition for ‘tolower<-’
.computeCV : <anonymous>: no visible binding for global variable
  ‘xml.count’
.computeCV : <anonymous>: no visible binding for global variable
  ‘openCyto.count’
.computeCV : <anonymous> : <anonymous>: no visible global function
  definition for ‘IQR’
.computeCV : <anonymous> : <anonymous>: no visible global function
  definition for ‘median’
.computeCV_gh : <anonymous>: no visible global function definition for
  ‘IQR’
.computeCV_gh : <anonymous>: no visible global function definition for
  ‘median’
.convertTrans : <anonymous> : f : <anonymous>: no visible binding for
  global variable ‘max_val’
.convertTrans : <anonymous> : f : <anonymous>: no visible binding for
  global variable ‘decade’
.convertTrans : <anonymous> : f : <anonymous>: no visible binding for
  global variable ‘offset’
.convertTrans : <anonymous> : f : <anonymous>: no visible binding for
  global variable ‘min_val’
.convertTrans : <anonymous>: multiple local function definitions for
  ‘f’ with different formal arguments
.dropRedundantNodes : <anonymous>: no visible global function
  definition for ‘is’
.getSingleCellExpression: no visible binding for global variable
  ‘parallel’
.graph_handler : asGraphNEL: no visible global function definition for
  ‘new’
.graph_handler : asGraphNEL: no visible global function definition for
  ‘validObject’
.load_gs: no visible global function definition for ‘new’
.load_gs: no visible global function definition for ‘.hasSlot’
.load_gs: no visible global function definition for ‘slot’
.mergeGates : <anonymous>: no visible global function definition for
  ‘extends’
.parse.pData: no visible binding for global variable ‘.’
.plotGate: no visible global function definition for ‘new’
.plotGate: no visible global function definition for ‘as.formula’
.preplot: no visible global function definition for ‘as’
.preprocessMap: no visible binding for global variable ‘old’
.preprocessMap: no visible binding for global variable ‘.’
.preprocessor: no visible binding for global variable ‘groupName’
GatingSetList: no visible global function definition for ‘as’
GatingSetList: no visible global function definition for ‘validObject’
booleanFilter: no visible global function definition for ‘new’
char2booleanFilter: no visible global function definition for ‘new’
dropRedundantNodes : <anonymous>: no visible global function definition
  for ‘is’
flowWorkspace.par.init: no visible global function definition for
  ‘gray’
getMergedStats: no visible binding for global variable ‘sampleName’
mkformula: no visible global function definition for ‘as.formula’
save_gslist: no visible binding for global variable ‘slot’
transformerList: no visible global function definition for ‘is’
transformerList: no visible binding for global variable ‘is’
GatingSet,GatingHierarchy-character: no visible global function
  definition for ‘new’
GatingSet,character-character: no visible global function definition
  for ‘new’
GatingSet,flowSet-ANY: no visible global function definition for ‘new’
Rm,character-GatingSetList-character: no visible global function
  definition for ‘selectMethod’
[,GatingSet-ANY: no visible global function definition for ‘extends’
[,GatingSetList-ANY: no visible global function definition for
  ‘callNextMethod’
[,GatingSetList-ANY: no visible global function definition for ‘as’
[[,GatingSet-character: no visible global function definition for ‘new’
add,GatingHierarchy-logicalFilterResult: no visible global function
  definition for ‘selectMethod’
add,GatingSet-filtersList: no visible global function definition for
  ‘selectMethod’
add,GatingSet-list: no visible global function definition for
  ‘selectMethod’
add,GatingSetList-filter: no visible global function definition for
  ‘selectMethod’
add,GatingSetList-filterList: no visible global function definition for
  ‘selectMethod’
add,GatingSetList-filters: no visible global function definition for
  ‘selectMethod’
add,GatingSetList-filtersList: no visible global function definition
  for ‘selectMethod’
add,GatingSetList-list: no visible global function definition for
  ‘selectMethod’
getPopStats,GatingHierarchy: no visible binding for global variable
  ‘node’
keyword,GatingSetList-character: no visible global function definition
  for ‘selectMethod’
keyword,GatingSetList-missing: no visible global function definition
  for ‘selectMethod’
openWorkspace,character: no visible global function definition for
  ‘new’
pData<-,GatingSetList-data.frame: no visible global function definition
  for ‘callNextMethod’
pData<-,GatingSetList-data.frame: no visible global function definition
  for ‘as’
plotGate,GatingSetList-character: no visible global function definition
  for ‘selectMethod’
rbind2,GatingSetList-missing: no visible global function definition for
  ‘new’
rbind2,GatingSetList-missing: no visible binding for global variable
  ‘slot’
recompute,GatingSetList: no visible global function definition for
  ‘selectMethod’
show,flowJoWorkspace: no visible global function definition for ‘.’
show,flowJoWorkspace: no visible binding for global variable
  ‘groupName’
transform,GatingSet: no visible global function definition for ‘is’
Undefined global functions or variables:
  . .hasSlot IQR as as.formula callNextMethod decade extends gray
  groupName is max_val median min_val new node offset old
  openCyto.count parallel sampleName selectMethod slot tolower<-
  validObject xml.count
Consider adding
  importFrom("grDevices", "gray")
  importFrom("methods", ".hasSlot", "as", "callNextMethod", "extends",
             "is", "new", "selectMethod", "slot", "validObject")
  importFrom("stats", "IQR", "as.formula", "median", "offset")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in shell scripts ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... NOTE
GNU make is a SystemRequirements.
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... NOTE
File ‘flowWorkspace/libs/flowWorkspace.so’:
  Found ‘_ZSt4cout’, possibly from ‘std::cout’ (C++)
    Objects: ‘flowJoWorkspace.o’, ‘macFlowJoWorkspace.o’,
      ‘winFlowJoWorkspace.o’, ‘workspace.o’, ‘ws2gh.o’, ‘ws2gs.o’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 6 NOTEs
See
  ‘/home/biocbuild/bbs-3.6-bioc/meat/flowWorkspace.Rcheck/00check.log’
for details.

Installation output

flowWorkspace.Rcheck/00install.out

* installing *source* package ‘flowWorkspace’ ...
checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether g++ -std=gnu++11 accepts -g... yes
checking for gcc... gcc
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
configure: setting xml2 flags...
configure: No directory was specified for --with-xml2. Trying to find xml2 using other methods.
checking for xml2-config... /usr/bin/xml2-config
configure: Using the following compilation and linking flags for flowWorkspace
configure:    PKG_CPPFLAGS=-I/usr/include/libxml2
configure:    PKG_LIBS=-lxml2
configure: creating ./config.status
config.status: creating src/Makevars
** libs
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c R_API.cpp -o R_API.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from R_API.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c R_GatingHierarchy.cpp -o R_GatingHierarchy.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from R_GatingHierarchy.cpp:17:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c R_GatingSet.cpp -o R_GatingSet.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from R_GatingSet.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c RcppExports.cpp -o RcppExports.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace.h:5,
                 from RcppExports.cpp:4:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c flowJoWorkspace.cpp -o flowJoWorkspace.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from flowJoWorkspace.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c getSingleCellExpression.cpp -o getSingleCellExpression.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from getSingleCellExpression.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from getSingleCellExpression.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from getSingleCellExpression.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from getSingleCellExpression.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from getSingleCellExpression.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from getSingleCellExpression.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from getSingleCellExpression.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from getSingleCellExpression.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from getSingleCellExpression.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from getSingleCellExpression.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from getSingleCellExpression.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from getSingleCellExpression.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from getSingleCellExpression.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from getSingleCellExpression.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from getSingleCellExpression.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from getSingleCellExpression.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from getSingleCellExpression.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from getSingleCellExpression.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c macFlowJoWorkspace.cpp -o macFlowJoWorkspace.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/macFlowJoWorkspace.hpp:10,
                 from macFlowJoWorkspace.cpp:9:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c setCounts.cpp -o setCounts.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from setCounts.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from setCounts.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from setCounts.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from setCounts.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from setCounts.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from setCounts.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from setCounts.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from setCounts.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from setCounts.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from setCounts.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from setCounts.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from setCounts.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from setCounts.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from setCounts.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from setCounts.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from setCounts.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from setCounts.cpp:2:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/bits/locale_conv.h:41:0,
                 from /usr/include/c++/5/locale:43,
                 from /usr/include/c++/5/iomanip:43,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/RcppCommon.h:61,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include/Rcpp.h:27,
                 from setCounts.cpp:1:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c winFlowJoWorkspace.cpp -o winFlowJoWorkspace.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from ../inst/include/flowWorkspace/flowJoWorkspace.hpp:11,
                 from ../inst/include/flowWorkspace/winFlowJoWorkspace.hpp:10,
                 from winFlowJoWorkspace.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c workspace.cpp -o workspace.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from ../inst/include/flowWorkspace/workspace.hpp:14,
                 from workspace.cpp:11:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c ws2gh.cpp -o ws2gh.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ws2gh.cpp:7:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c ws2gs.cpp -o ws2gs.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/populationTree.hpp:11,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingHierarchy.hpp:13,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/GatingSet.hpp:12,
                 from ../inst/include/flowWorkspace/ws2gh.hpp:11,
                 from ../inst/include/flowWorkspace/ws2gs.hpp:11,
                 from ws2gs.cpp:8:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
g++ -std=gnu++11 -I/home/biocbuild/bbs-3.6-bioc/R/include -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -I"/home/biocbuild/bbs-3.6-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/BH/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/include" -I"/home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include" -I/usr/local/include   -fpic  -g -O2 -c wsNode.cpp -o wsNode.o
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/scoped_ptr.hpp:13:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/scoped_ptr.hpp:74:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit scoped_ptr( std::auto_ptr<T> p ) BOOST_SP_NOEXCEPT : px( p.release() )
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/detail/shared_count.hpp:355:33: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_count( std::auto_ptr<Y> & r ): pi_( new sp_counted_impl_p<Y>( r.get() ) )
                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:256:65: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template< class T, class R > struct sp_enable_if_auto_ptr< std::auto_ptr< T >, R >
                                                                 ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:471:31: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     explicit shared_ptr( std::auto_ptr<Y> & r ): px(r.get()), pn()
                               ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:484:22: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr( std::auto_ptr<Y> && r ): px(r.get()), pn()
                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:567:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> & r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:576:34: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
     shared_ptr & operator=( std::auto_ptr<Y> && r )
                                  ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/shared_ptr.hpp:17:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/vector_property_map.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/property_map/property_map.hpp:601,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:28,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp: In member function ‘boost::shared_ptr<T>& boost::shared_ptr<T>::operator=(std::auto_ptr<_Up>&&)’:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/smart_ptr/shared_ptr.hpp:578:38: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
         this_type( static_cast< std::auto_ptr<Y> && >( r ) ).swap( *this );
                                      ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
In file included from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/bind/mem_fn.hpp:25:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/mem_fn.hpp:22,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function/detail/prologue.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/function.hpp:30,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/detail/find_iterator.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/find_iterator.hpp:24,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/iter_find.hpp:27,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string/split.hpp:16,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/algorithm/string.hpp:23,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:20,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp: At global scope:
/home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/get_pointer.hpp:48:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
 template<class T> T * get_pointer(std::auto_ptr<T> const& p)
                                        ^
In file included from /usr/include/c++/5/memory:81:0,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/extensions.hpp:37,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash/hash.hpp:594,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/functional/hash.hpp:6,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered/unordered_set.hpp:18,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/unordered_set.hpp:17,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adjacency_list.hpp:21,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/BH/include/boost/graph/adj_list_serialize.hpp:12,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/flowData.hpp:19,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/gate.hpp:14,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/POPINDICES.hpp:15,
                 from /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/include/cytolib/nodeProperties.hpp:11,
                 from ../inst/include/flowWorkspace/wsNode.hpp:10,
                 from wsNode.cpp:10:
/usr/include/c++/5/bits/unique_ptr.h:49:28: note: declared here
   template<typename> class auto_ptr;
                            ^
mkdir -p "/home/biocbuild/bbs-3.6-bioc/meat/flowWorkspace.Rcheck/flowWorkspace/lib"
ar rs "/home/biocbuild/bbs-3.6-bioc/meat/flowWorkspace.Rcheck/flowWorkspace/lib/libflowWorkspace.a" R_API.o R_GatingHierarchy.o R_GatingSet.o RcppExports.o flowJoWorkspace.o getSingleCellExpression.o macFlowJoWorkspace.o setCounts.o winFlowJoWorkspace.o workspace.o ws2gh.o ws2gs.o wsNode.o
ar: creating /home/biocbuild/bbs-3.6-bioc/meat/flowWorkspace.Rcheck/flowWorkspace/lib/libflowWorkspace.a
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.6-bioc/R/lib -L/usr/local/lib -o flowWorkspace.so R_API.o R_GatingHierarchy.o R_GatingSet.o RcppExports.o flowJoWorkspace.o getSingleCellExpression.o macFlowJoWorkspace.o setCounts.o winFlowJoWorkspace.o workspace.o ws2gh.o ws2gs.o wsNode.o /home/biocbuild/bbs-3.6-bioc/R/library/cytolib/lib/libcytolib.a /home/biocbuild/bbs-3.6-bioc/R/library/RProtoBufLib/lib/libprotobuf.a -lxml2 -L/home/biocbuild/bbs-3.6-bioc/R/lib -lR
if [ `uname -s` = 'Darwin' ]; then install_name_tool -change /usr/local/clang4/lib/libc++.1.dylib /usr/lib/libc++.1.dylib flowWorkspace.so; fi
installing to /home/biocbuild/bbs-3.6-bioc/meat/flowWorkspace.Rcheck/flowWorkspace/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (flowWorkspace)

Tests output

flowWorkspace.Rcheck/tests/testthat.Rout


R version 3.4.4 (2018-03-15) -- "Someone to Lean On"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(flowWorkspace)
Loading required package: flowCore

Attaching package: 'flowCore'

The following object is masked from 'package:base':

    sort

Loading required package: ncdfFlow
Loading required package: RcppArmadillo
Loading required package: BH
> 
> test_check("flowWorkspace")

Attaching package: 'dplyr'

The following objects are masked from 'package:data.table':

    between, first, last

The following object is masked from 'package:ncdfFlow':

    filter

The following object is masked from 'package:flowCore':

    filter

The following object is masked from 'package:testthat':

    matches

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
mac version of flowJo workspace recognized.
══ testthat results  ═══════════════════════════════════════════════════════════
OK: 770 SKIPPED: 3 FAILED: 0
> 
> #devtools::test("˜/rglab/workspace/flowWorkspace")
> #devtools::check_man()
> #test_file("/home/wjiang2/rglab/workspace/flowWorkspace/tests/testthat/test-archive.R")
> #test_file("/home/wjiang2/rglab/workspace/flowWorkspace/tests/testthat/test-parseWorkspace.R")
> 
> #test_file("/home/wjiang2/rglab/workspace/flowWorkspace/tests/testthat/InternalTestSuite.R")
> 
> 
> proc.time()
   user  system elapsed 
 32.712   0.924  34.272

Example timings

flowWorkspace.Rcheck/flowWorkspace-Ex.timings

nameusersystemelapsed
GatingHierarchy-class3.9240.0964.351
GatingSet-class2.0120.0522.066
GatingSet-methods0.0000.0000.001
GatingSetList-class0.0040.0000.003
add0.0040.0000.002
asinh_Gml20.0000.0000.001
asinhtGml2_trans0.0000.0000.001
booleanFilter-class0.0000.0000.003
checkRedundantNodes0.0000.0000.001
clone000
compensate000
dropRedundantChannels000
dropRedundantNodes0.0000.0000.001
estimateLogicle.GatingHierarchy0.0000.0000.001
flowJo.fasinh000
flowJoTrans0.0000.0000.002
flowJoWorkspace-class0.0280.0000.031
flowJo_biexp_trans0.5120.0040.515
flowJo_fasinh_trans0.0000.0000.001
flowWorkspace.par.get0.0000.0000.001
flow_breaks0.7360.0040.743
getCompensationMatrices0.0000.0000.001
getData-methods000
getGate000
getIndices-GatingSet-name-method0.0040.0000.001
getIndices0.0000.0000.001
getKeywords0.2160.0040.295
getMergedStats000
getParent0.0000.0000.001
getPopStats0.0040.0000.001
getSampleGroups0.0000.0000.001
getSamples000
getSingleCellExpression0.0040.0000.001
getTransformations000
groupByChannels000
groupByTree000
insertGate0.0000.0000.001
keyword0.0000.0000.001
logicleGml2_trans0.0040.0000.001
logicle_trans0.0120.0000.014
loglevel000
markernames0.0000.0000.001
mkformula0.0040.0000.001
moveNode0.1080.0080.116
openWorkspace0.0000.0000.001
parseWorkspace0.0040.0000.001
plot-methods000
plotGate-methods0.0000.0000.001
plotPopCV0.0000.0000.001
prettyAxis000
sampleNames000
save_gs0.0000.0000.001
set.count.xml0.0000.0000.001
setGate0.0000.0000.001
setNode-methods0.0040.0000.000
transform0.0000.0000.001
transformerList0.0320.0040.048
updateChannels0.0000.0000.001