James W. MacDonald
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/makecdfenv |
| Branch: RELEASE_3_11 |
| Last Commit: 13c3388 |
| Last Changed Date: 2020-04-27 14:08:17 -0400 (Mon, 27 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:57:00 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE makecdfenv PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 979/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| makecdfenv 1.64.0 James W. MacDonald
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |
| Package: makecdfenv |
| Version: 1.64.0 |
| Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:makecdfenv.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings makecdfenv_1.64.0.tar.gz |
| StartedAt: 2020-10-17 05:38:46 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 05:40:00 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 74.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: makecdfenv.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:makecdfenv.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings makecdfenv_1.64.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/makecdfenv.Rcheck'
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'makecdfenv/DESCRIPTION' ... OK
* this is package 'makecdfenv' version '1.64.0'
* 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 whether package 'makecdfenv' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... NOTE
Foreign function calls to a different package:
.Call("CheckCDFXDA", ..., PACKAGE = "affyio")
.Call("ReadCDFFile", ..., PACKAGE = "affyio")
See chapter 'System and foreign language interfaces' in the 'Writing R
Extensions' manual.
* checking R code for possible problems ... OK
* 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 ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files for i386 is not available
Note: information on .o files for x64 is not available
File 'C:/Users/biocbuild/bbs-3.11-bioc/R/library/makecdfenv/libs/i386/makecdfenv.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
File 'C:/Users/biocbuild/bbs-3.11-bioc/R/library/makecdfenv/libs/x64/makecdfenv.dll':
Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
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. The detected symbols are linked into the code but
might come from libraries and not actually be called.
See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.11-bioc/meat/makecdfenv.Rcheck/00check.log'
for details.
makecdfenv.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/makecdfenv_1.64.0.tar.gz && rm -rf makecdfenv.buildbin-libdir && mkdir makecdfenv.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=makecdfenv.buildbin-libdir makecdfenv_1.64.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL makecdfenv_1.64.0.zip && rm makecdfenv_1.64.0.tar.gz makecdfenv_1.64.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 3075k 100 3075k 0 0 36.4M 0 --:--:-- --:--:-- --:--:-- 40.0M
install for i386
* installing *source* package 'makecdfenv' ...
** using staged installation
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c read_cdffile.c -o read_cdffile.o
read_cdffile.c: In function 'readQC':
read_cdffile.c:576:7: warning: variable 'typeQC' set but not used [-Wunused-but-set-variable]
int typeQC;
^~~~~~
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o makecdfenv.dll tmp.def read_cdffile.o -LC:/Users/biocbuild/bbs-3.11-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/makecdfenv.buildbin-libdir/00LOCK-makecdfenv/00new/makecdfenv/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'makecdfenv'
finding HTML links ... done
Cdf-class html
getInfoInAffyFile html
make.cdf.env html
make.cdf.package html
pmormm html
read.cdffile html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'makecdfenv' ...
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/biocbuild/bbs-3.11-bioc/R/library/zlibbioc/include" -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -DHAVE_ZLIB -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c read_cdffile.c -o read_cdffile.o
read_cdffile.c: In function 'readQC':
read_cdffile.c:576:7: warning: variable 'typeQC' set but not used [-Wunused-but-set-variable]
int typeQC;
^~~~~~
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o makecdfenv.dll tmp.def read_cdffile.o -LC:/Users/biocbuild/bbs-3.11-bioc/R/library/zlibbioc/libs/x64 -lzlib1bioc -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/makecdfenv.buildbin-libdir/makecdfenv/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'makecdfenv' as makecdfenv_1.64.0.zip
* DONE (makecdfenv)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'makecdfenv' successfully unpacked and MD5 sums checked
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makecdfenv.Rcheck/examples_i386/makecdfenv-Ex.timings
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makecdfenv.Rcheck/examples_x64/makecdfenv-Ex.timings
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