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This page was generated on 2024-03-27 11:36:39 -0400 (Wed, 27 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4667
palomino4Windows Server 2022 Datacenterx644.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" 4403
merida1macOS 12.7.1 Montereyx86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4426
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 723/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
flowClust 3.40.0  (landing page)
Greg Finak , Mike Jiang
Snapshot Date: 2024-03-25 14:05:07 -0400 (Mon, 25 Mar 2024)
git_url: https://git.bioconductor.org/packages/flowClust
git_branch: RELEASE_3_18
git_last_commit: 4acf935
git_last_commit_date: 2023-10-24 09:39:35 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
merida1macOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here

BUILD BIN results for flowClust on palomino4


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: 3.40.0
Command: rm -rf flowClust.buildbin-libdir && mkdir flowClust.buildbin-libdir && F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD INSTALL --build --library=flowClust.buildbin-libdir flowClust_3.40.0.tar.gz
StartedAt: 2024-03-26 07:06:59 -0400 (Tue, 26 Mar 2024)
EndedAt: 2024-03-26 07:07:28 -0400 (Tue, 26 Mar 2024)
EllapsedTime: 29.0 seconds
RetCode: 0
Status:   OK  
PackageFile: flowClust_3.40.0.zip
PackageFileSize: 865.6 KiB

Command output

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###
### Running command:
###
###   rm -rf flowClust.buildbin-libdir && mkdir flowClust.buildbin-libdir && F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD INSTALL --build --library=flowClust.buildbin-libdir flowClust_3.40.0.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) 12.3.0'
rm -f BoxCox.o BoxCoxPriors.o Nu.o flowClust.o flowClustGaussian.o ranMVNT.o flowClust.dll
gcc  -I"F:/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c BoxCox.c -o BoxCox.o
gcc  -I"F:/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools43/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"F:/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c Nu.c -o Nu.o
gcc  -I"F:/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools43/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:713:49: warning: 's3' may be used uninitialized [-Wmaybe-uninitialized]
  713 |                                         nu_hi = gsl_min_fminimizer_x_upper(s3);
      |                                                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
flowClust.c:61:29: note: 's3' was declared here
   61 |         gsl_min_fminimizer *s3; // pointer to a newly allocated instance of a minimizer
      |                             ^~
flowClust.c:647:57: warning: 's2' may be used uninitialized [-Wmaybe-uninitialized]
  647 |                                                 nu_hi = gsl_root_fsolver_x_upper(s2);
      |                                                         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~
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:348:56: warning: 's' may be used uninitialized [-Wmaybe-uninitialized]
  348 |                                                 x_hi = gsl_root_fsolver_x_upper(s);
      |                                                        ^~~~~~~~~~~~~~~~~~~~~~~~~~~
flowClust.c:59:27: note: 's' was declared here
   59 |         gsl_root_fsolver *s, *s2; // pointer to a newly allocated instance of a solver
      |                           ^
gcc  -I"F:/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools43/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:207:56: warning: 's' may be used uninitialized [-Wmaybe-uninitialized]
  207 |                                                 x_hi = gsl_root_fsolver_x_upper(s);
      |                                                        ^~~~~~~~~~~~~~~~~~~~~~~~~~~
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"F:/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG -I/src/include     -I"C:/rtools43/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:/rtools43/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools43/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.18-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.18-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_3.40.0.zip
* DONE (flowClust)