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This page was generated on 2024-02-22 11:37:16 -0500 (Thu, 22 Feb 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.2 Patched (2023-11-13 r85521) -- "Eye Holes" 4691
palomino4Windows Server 2022 Datacenterx644.3.2 (2023-10-31 ucrt) -- "Eye Holes" 4444
lconwaymacOS 12.7.1 Montereyx86_644.3.2 Patched (2023-11-01 r85457) -- "Eye Holes" 4465
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 1869/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
scde 2.30.0  (landing page)
Evan Biederstedt
Snapshot Date: 2024-02-21 14:05:05 -0500 (Wed, 21 Feb 2024)
git_url: https://git.bioconductor.org/packages/scde
git_branch: RELEASE_3_18
git_last_commit: 4a9f092
git_last_commit_date: 2023-10-24 10:46:15 -0500 (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
lconwaymacOS 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 scde on palomino4


To the developers/maintainers of the scde package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/scde.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: scde
Version: 2.30.0
Command: rm -rf scde.buildbin-libdir && mkdir scde.buildbin-libdir && F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD INSTALL --build --library=scde.buildbin-libdir scde_2.30.0.tar.gz
StartedAt: 2024-02-22 09:13:24 -0500 (Thu, 22 Feb 2024)
EndedAt: 2024-02-22 09:14:40 -0500 (Thu, 22 Feb 2024)
EllapsedTime: 76.2 seconds
RetCode: 0
Status:   OK  
PackageFile: scde_2.30.0.zip
PackageFileSize: 2.563 MiB

Command output

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### Running command:
###
###   rm -rf scde.buildbin-libdir && mkdir scde.buildbin-libdir && F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD INSTALL --build --library=scde.buildbin-libdir scde_2.30.0.tar.gz
###
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* installing *source* package 'scde' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 12.3.0'
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.18-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.18-bioc/R/library/RcppArmadillo/include'   -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include"  -fopenmp    -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c bwpca.cpp -o bwpca.o
bwpca.cpp: In function 'void set_random_matrix(arma::mat&, arma::mat&)':
bwpca.cpp:24:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
   24 |     for(int j=0;j<target.n_rows;j++) {
      |                 ~^~~~~~~~~~~~~~
bwpca.cpp:31:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
   31 |     for(int i=0;i<target.n_cols;i++) {
      |                 ~^~~~~~~~~~~~~~
bwpca.cpp:34:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
   34 |         for(int j=0;j<target.n_rows;j++) {
      |                     ~^~~~~~~~~~~~~~
bwpca.cpp: In function 'void set_random_matrices(arma::mat&, arma::mat&, arma::mat&, arma::mat&)':
bwpca.cpp:44:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
   44 |     for(int j=0;j<target1.n_rows;j++) {
      |                 ~^~~~~~~~~~~~~~~
bwpca.cpp:51:18: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
   51 |     for(int i=0;i<target1.n_cols;i++) {
      |                 ~^~~~~~~~~~~~~~~
bwpca.cpp:54:22: warning: comparison of integer expressions of different signedness: 'int' and 'const arma::uword' {aka 'const unsigned int'} [-Wsign-compare]
   54 |         for(int j=0;j<target1.n_rows;j++) {
      |                     ~^~~~~~~~~~~~~~~
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.18-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.18-bioc/R/library/RcppArmadillo/include'   -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include"  -fopenmp    -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c jpmatLogBoot.cpp -o jpmatLogBoot.o
jpmatLogBoot.cpp: In function 'SEXPREC* logBootPosterior(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
jpmatLogBoot.cpp:200:24: warning: unused variable 'maxv' [-Wunused-variable]
  200 |                 double maxv=nbp.max(maxij);
      |                        ^~~~
jpmatLogBoot.cpp: In function 'SEXPREC* logBootBatchPosterior(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)':
jpmatLogBoot.cpp:443:24: warning: unused variable 'maxv' [-Wunused-variable]
  443 |                 double maxv=nbp.max(maxij);
      |                        ^~~~
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.18-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.18-bioc/R/library/RcppArmadillo/include'   -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include"  -fopenmp    -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c matSlideMult.cpp -o matSlideMult.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.18-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.18-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.18-bioc/R/library/RcppArmadillo/include'   -I"C:/rtools43/x86_64-w64-mingw32.static.posix/include"  -fopenmp    -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c pagoda.cpp -o pagoda.o
g++ -std=gnu++17 -shared -s -static-libgcc -o scde.dll tmp.def bwpca.o jpmatLogBoot.o matSlideMult.o pagoda.o -L/usr/lib/ -L. -lpthread -lm -LF:/biocbuild/bbs-3.18-bioc/R/bin/x64 -lRlapack -LF:/biocbuild/bbs-3.18-bioc/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -fopenmp -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/scde.buildbin-libdir/00LOCK-scde/00new/scde/libs/x64
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** 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 'scde' as scde_2.30.0.zip
* DONE (scde)