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This page was generated on 2025-03-17 11:37 -0400 (Mon, 17 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences" 4545
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4576
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4528
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4459
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 387/2313HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cn.farms 1.55.0  (landing page)
Andreas Mitterecker
Snapshot Date: 2025-03-16 13:40 -0400 (Sun, 16 Mar 2025)
git_url: https://git.bioconductor.org/packages/cn.farms
git_branch: devel
git_last_commit: 8600141
git_last_commit_date: 2024-10-29 09:36:23 -0400 (Tue, 29 Oct 2024)
palomino7Windows Server 2022 Datacenter / x64  ERROR    ERROR  skippedskipped
lconwaymacOS 12.7.1 Monterey / x86_64  ERROR    ERROR  skippedskipped
kjohnson3macOS 13.7.1 Ventura / arm64  ERROR    ERROR  skippedskipped
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  ERROR    ERROR  skipped


BUILD results for cn.farms on palomino7

To the developers/maintainers of the cn.farms package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cn.farms.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: cn.farms
Version: 1.55.0
Command: chmod a+r cn.farms -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data cn.farms
StartedAt: 2025-03-16 17:55:47 -0400 (Sun, 16 Mar 2025)
EndedAt: 2025-03-16 17:55:56 -0400 (Sun, 16 Mar 2025)
EllapsedTime: 9.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r cn.farms -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data cn.farms
###
##############################################################################
##############################################################################


* checking for file 'cn.farms/DESCRIPTION' ... OK
* preparing 'cn.farms':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package 'cn.farms' ...
** this is package 'cn.farms' version '1.55.0'
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 14.2.0'
using C++ compiler: 'G__~1.EXE (GCC) 14.2.0'
gcc  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall -std=gnu2x  -mfpmath=sse -msse2 -mstackrealign   -c R_init_cnfarms.c -o R_init_cnfarms.o
g++ -std=gnu++17  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign    -c laplace.cpp -o laplace.o
laplace.cpp: In function 'SEXPREC* momentsGauss(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
laplace.cpp:442:13: warning: unused variable 'method' [-Wunused-variable]
  442 |         int method=0;
      |             ^~~~~~
laplace.cpp: In function 'void computeParameters(double, double, double, double, double, double, int&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&, double&)':
laplace.cpp:364:42: warning: 'I1left' may be used uninitialized [-Wmaybe-uninitialized]
  364 |         double I2left=(-leftMy/leftSigma)*I1left+I0left;
      |                       ~~~~~~~~~~~~~~~~~~~^~~~~~~
laplace.cpp:198:16: note: 'I1left' was declared here
  198 |         double I1left;
      |                ^~~~~~
laplace.cpp:368:63: warning: 'I1right' may be used uninitialized [-Wmaybe-uninitialized]
  368 |         double rightMoment1=1.0*rightMy*I0right+1.0*rightSigma*I1right;
      |                                                 ~~~~~~~~~~~~~~^~~~~~~~
laplace.cpp:199:16: note: 'I1right' was declared here
  199 |         double I1right;
      |                ^~~~~~~
gcc  -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG     -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include"      -O2 -Wall -std=gnu2x  -mfpmath=sse -msse2 -mstackrealign   -c sparse_farms.c -o sparse_farms.o
sparse_farms.c: In function 'normData':
sparse_farms.c:185:20: error: implicit declaration of function 'Calloc'; did you mean 'calloc'? [-Wimplicit-function-declaration]
  185 |         void** ret=Calloc(1, void*);
      |                    ^~~~~~
      |                    calloc
sparse_farms.c:185:30: error: expected expression before 'void'
  185 |         void** ret=Calloc(1, void*);
      |                              ^~~~
sparse_farms.c:189:39: error: expected expression before 'double'
  189 |         E_SX_n  =(double**)Calloc(nn, double*);
      |                                       ^~~~~~
sparse_farms.c:198:29: error: expected expression before 'int'
  198 |         nna=(int*)Calloc(1, int);
      |                             ^~~
sparse_farms.c:204:46: error: expected expression before 'double'
  204 |                 E_SX_n[l]=(double*)Calloc(3, double);
      |                                              ^~~~~~
sparse_farms.c: In function 'sparseFarmsC':
sparse_farms.c:264:30: error: expected expression before 'void'
  264 |         void** ret=Calloc(4, void*);
      |                              ^~~~
sparse_farms.c:272:29: error: expected expression before 'int'
  272 |         nna=(int*)Calloc(1, int);
      |                             ^~~
sparse_farms.c:277:31: error: expected expression before 'double'
  277 |         L=(double**)Calloc(2, double*);
      |                               ^~~~~~
sparse_farms.c:279:36: error: expected expression before 'double'
  279 |         lapla=(double**)Calloc(nn, double*);
      |                                    ^~~~~~
sparse_farms.c:281:39: error: expected expression before 'double'
  281 |         E_SX_n  =(double**)Calloc(nn, double*);
      |                                       ^~~~~~
sparse_farms.c:287:41: error: expected expression before 'double'
  287 |                 L[l]=(double*)Calloc(3, double);
      |                                         ^~~~~~
sparse_farms.c:295:45: error: expected expression before 'double'
  295 |                 lapla[l]=(double*)Calloc(3, double);
      |                                             ^~~~~~
sparse_farms.c:297:46: error: expected expression before 'double'
  297 |                 E_SX_n[l]=(double*)Calloc(3, double);
      |                                              ^~~~~~
sparse_farms.c: In function 'deinit':
sparse_farms.c:642:17: error: implicit declaration of function 'Free'; did you mean 'free'? [-Wimplicit-function-declaration]
  642 |                 Free(L[l]);
      |                 ^~~~
      |                 free
make: *** [E:/biocbuild/bbs-3.21-bioc/R/etc/x64/Makeconf:289: sparse_farms.o] Error 1
ERROR: compilation failed for package 'cn.farms'
* removing 'E:/biocbuild/bbs-3.21-bioc/tmpdir/Rtmp6LIzly/Rinst5da032ea2add/cn.farms'
      -----------------------------------
ERROR: package installation failed