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This page was generated on 2024-07-16 11:40 -0400 (Tue, 16 Jul 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4677
palomino6Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4416
lconwaymacOS 12.7.1 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4444
kjohnson3macOS 13.6.5 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4393
palomino8Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4373
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 713/2243HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowClust 3.43.0  (landing page)
Greg Finak , Mike Jiang
Snapshot Date: 2024-07-15 14:00 -0400 (Mon, 15 Jul 2024)
git_url: https://git.bioconductor.org/packages/flowClust
git_branch: devel
git_last_commit: a59c5fa
git_last_commit_date: 2024-04-30 10:17:51 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino6Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.6.5 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  


BUILD BIN results for flowClust on palomino6

To the developers/maintainers of the flowClust package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/flowClust.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: flowClust
Version: 3.43.0
Command: rm -rf flowClust.buildbin-libdir && mkdir flowClust.buildbin-libdir && C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=flowClust.buildbin-libdir flowClust_3.43.0.tar.gz
StartedAt: 2024-07-16 06:12:01 -0400 (Tue, 16 Jul 2024)
EndedAt: 2024-07-16 06:12:26 -0400 (Tue, 16 Jul 2024)
EllapsedTime: 25.6 seconds
RetCode: 0
Status:   OK  
PackageFile: flowClust_3.43.0.zip
PackageFileSize: 843.1 KiB

Command output

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###
### Running command:
###
###   rm -rf flowClust.buildbin-libdir && mkdir flowClust.buildbin-libdir && C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL --build --library=flowClust.buildbin-libdir flowClust_3.43.0.tar.gz
###
##############################################################################
##############################################################################


* installing *source* package 'flowClust' ...
** using staged installation

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
using C compiler: 'gcc.exe (GCC) 13.2.0'
rm -f BoxCox.o BoxCoxPriors.o Nu.o flowClust.o flowClustGaussian.o ranMVNT.o flowClust.dll
gcc  -I"C:/Users/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c BoxCox.c -o BoxCox.o
gcc  -I"C:/Users/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c BoxCoxPriors.c -o BoxCoxPriors.o
BoxCoxPriors.c: In function 'BoxCoxGradientPriors':
BoxCoxPriors.c:57:23: warning: unused variable 'rowZ' [-Wunused-variable]
   57 |         rowPrecision, rowZ, rowLambda0;
      |                       ^~~~
BoxCoxPriors.c:33:31: warning: unused variable 'kappa0' [-Wunused-variable]
   33 |         double *nu0 = p->nu0, kappa0 = p->kappa0;
      |                               ^~~~~~
BoxCoxPriors.c:32:14: warning: unused variable 'itersolve' [-Wunused-variable]
   32 |         int *itersolve = p->itersolve;
      |              ^~~~~~~~~
BoxCoxPriors.c:31:13: warning: unused variable 'iter' [-Wunused-variable]
   31 |         int iter = p->iter;
      |             ^~~~
BoxCoxPriors.c:28:13: warning: unused variable 'model' [-Wunused-variable]
   28 |         int model = *p->model;
      |             ^~~~~
BoxCoxPriors.c:23:21: warning: unused variable 'SumZlogY' [-Wunused-variable]
   23 |         gsl_vector *SumZlogY = p->SumZlogY;
      |                     ^~~~~~~~
BoxCoxPriors.c:15:21: warning: unused variable 'Precision' [-Wunused-variable]
   15 |         gsl_matrix *Precision = p->Precision; // will be updated
      |                     ^~~~~~~~~
gcc  -I"C:/Users/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c Nu.c -o Nu.o
gcc  -I"C:/Users/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c flowClust.c -o flowClust.o
flowClust.c: In function 'flowClust':
flowClust.c:48:9: warning: unused variable 'matrixZUY2' [-Wunused-variable]
   48 |         matrixZUY2;
      |         ^~~~~~~~~~
flowClust.c:46:55: warning: unused variable 'subRowZUY2' [-Wunused-variable]
   46 |         rowYTransS, rowZUY, subRowZUY, rowZ, rowZUY2, subRowZUY2;
      |                                                       ^~~~~~~~~~
flowClust.c:46:46: warning: unused variable 'rowZUY2' [-Wunused-variable]
   46 |         rowYTransS, rowZUY, subRowZUY, rowZ, rowZUY2, subRowZUY2;
      |                                              ^~~~~~~
flowClust.c: In function 'ECMUpdateSigmaG2':
flowClust.c:1111:13: warning: unused variable 'i' [-Wunused-variable]
 1111 |         int i=0;
      |             ^
flowClust.c: At top level:
flowClust.c:10:27: warning: 'CEntries' defined but not used [-Wunused-const-variable=]
   10 | static const R_CMethodDef CEntries[] = { { "flowClust", (DL_FUNC) & flowClust,
      |                           ^~~~~~~~
flowClust.c: In function 'flowClust':
flowClust.c:372:50: warning: 's' may be used uninitialized [-Wmaybe-uninitialized]
  372 |                                         status = gsl_root_fsolver_set(s, &F, *xLow, *xUp);
      |                                                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
flowClust.c:59:27: note: 's' was declared here
   59 |         gsl_root_fsolver *s, *s2; // pointer to a newly allocated instance of a solver
      |                           ^
flowClust.c:663:50: warning: 's2' may be used uninitialized [-Wmaybe-uninitialized]
  663 |                                         status = gsl_root_fsolver_set(s2, &F2, *nuLow, *nuUp);
      |                                                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
flowClust.c:59:31: note: 's2' was declared here
   59 |         gsl_root_fsolver *s, *s2; // pointer to a newly allocated instance of a solver
      |                               ^~
flowClust.c:702:34: warning: 's3' may be used uninitialized [-Wmaybe-uninitialized]
  702 |                         status = gsl_min_fminimizer_set(s3, &F3, *nu, *nuLow, *nuUp);
      |                                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
flowClust.c:61:29: note: 's3' was declared here
   61 |         gsl_min_fminimizer *s3; // pointer to a newly allocated instance of a minimizer
      |                             ^~
gcc  -I"C:/Users/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c flowClustGaussian.c -o flowClustGaussian.o
flowClustGaussian.c: In function 'flowClustGaussian':
flowClustGaussian.c:230:50: warning: 's' may be used uninitialized [-Wmaybe-uninitialized]
  230 |                                         status = gsl_root_fsolver_set(s, &F, *xLow, *xUp);
      |                                                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
flowClustGaussian.c:39:27: note: 's' was declared here
   39 |         gsl_root_fsolver *s; // pointer to a newly allocated instance of a solver
      |                           ^
gcc  -I"C:/Users/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c ranMVNT.c -o ranMVNT.o
gcc -shared -s -static-libgcc -o flowClust.dll tmp.def BoxCox.o BoxCoxPriors.o Nu.o flowClust.o flowClustGaussian.o ranMVNT.o -lgsl -lgslcblas -lm -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LC:/Users/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.20-bioc/meat/flowClust.buildbin-libdir/00LOCK-flowClust/00new/flowClust/libs/x64
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'Map' in package 'flowClust'
** help
*** installing help indices
** 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
* MD5 sums
packaged installation of 'flowClust' as flowClust_3.43.0.zip
* DONE (flowClust)