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This page was generated on 2024-06-11 15:40 -0400 (Tue, 11 Jun 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" 4679
palomino4Windows Server 2022 Datacenterx644.4.0 RC (2024-04-16 r86468 ucrt) -- "Puppy Cup" 4414
merida1macOS 12.7.4 Montereyx86_644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4441
kjohnson1macOS 13.6.6 Venturaarm644.4.0 Patched (2024-04-24 r86482) -- "Puppy Cup" 4394
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 1172/2239HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
messina 1.41.0  (landing page)
Mark Pinese
Snapshot Date: 2024-06-09 14:00 -0400 (Sun, 09 Jun 2024)
git_url: https://git.bioconductor.org/packages/messina
git_branch: devel
git_last_commit: 69fe8ef
git_last_commit_date: 2024-04-30 10:35:44 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    ERROR  skipped
palomino4Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
merida1macOS 12.7.4 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson1macOS 13.6.6 Ventura / arm64  OK    ERROR  skippedskipped

INSTALL results for messina on palomino4

To the developers/maintainers of the messina package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/messina.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: messina
Version: 1.41.0
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL messina
StartedAt: 2024-06-09 16:30:38 -0400 (Sun, 09 Jun 2024)
EndedAt: 2024-06-09 16:31:28 -0400 (Sun, 09 Jun 2024)
EllapsedTime: 50.7 seconds
RetCode: 0
Status:   OK  

Command output

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### Running command:
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###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL messina
###
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* installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library'
* installing *source* package 'messina' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c Classifier.cpp -o Classifier.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c Data.cpp -o Data.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c crossval.cpp -o crossval.o
crossval.cpp: In function 'STATUS CrossVal::cv(int32_t, uint16_t, Classifier&, Result*, bool, bool)':
crossval.cpp:229:40: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  229 |                                 delete train_indices;
      |                                        ^~~~~~~~~~~~~
crossval.cpp:184:52: note: returned from 'void* operator new [](std::size_t)'
  184 |         if ((train_indices = new int32_t[train_size]) == NULL)
      |                                                    ^
crossval.cpp:230:40: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  230 |                                 delete test_indices;
      |                                        ^~~~~~~~~~~~
crossval.cpp:187:50: note: returned from 'void* operator new [](std::size_t)'
  187 |         if ((test_indices = new int32_t[test_size]) == NULL)
      |                                                  ^
crossval.cpp:231:40: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  231 |                                 delete in_test_set;
      |                                        ^~~~~~~~~~~
crossval.cpp:193:44: note: returned from 'void* operator new [](std::size_t)'
  193 |         if ((in_test_set = new bool[n_samps]) == NULL)
      |                                            ^
crossval.cpp:238:32: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  238 |                         delete train_indices;
      |                                ^~~~~~~~~~~~~
crossval.cpp:184:52: note: returned from 'void* operator new [](std::size_t)'
  184 |         if ((train_indices = new int32_t[train_size]) == NULL)
      |                                                    ^
crossval.cpp:239:32: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  239 |                         delete test_indices;
      |                                ^~~~~~~~~~~~
crossval.cpp:187:50: note: returned from 'void* operator new [](std::size_t)'
  187 |         if ((test_indices = new int32_t[test_size]) == NULL)
      |                                                  ^
crossval.cpp:240:32: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  240 |                         delete in_test_set;
      |                                ^~~~~~~~~~~
crossval.cpp:193:44: note: returned from 'void* operator new [](std::size_t)'
  193 |         if ((in_test_set = new bool[n_samps]) == NULL)
      |                                            ^
crossval.cpp:246:32: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  246 |                         delete train_indices;
      |                                ^~~~~~~~~~~~~
crossval.cpp:184:52: note: returned from 'void* operator new [](std::size_t)'
  184 |         if ((train_indices = new int32_t[train_size]) == NULL)
      |                                                    ^
crossval.cpp:247:32: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  247 |                         delete test_indices;
      |                                ^~~~~~~~~~~~
crossval.cpp:187:50: note: returned from 'void* operator new [](std::size_t)'
  187 |         if ((test_indices = new int32_t[test_size]) == NULL)
      |                                                  ^
crossval.cpp:248:32: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  248 |                         delete in_test_set;
      |                                ^~~~~~~~~~~
crossval.cpp:193:44: note: returned from 'void* operator new [](std::size_t)'
  193 |         if ((in_test_set = new bool[n_samps]) == NULL)
      |                                            ^
crossval.cpp:254:32: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  254 |                         delete train_indices;
      |                                ^~~~~~~~~~~~~
crossval.cpp:184:52: note: returned from 'void* operator new [](std::size_t)'
  184 |         if ((train_indices = new int32_t[train_size]) == NULL)
      |                                                    ^
crossval.cpp:255:32: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  255 |                         delete test_indices;
      |                                ^~~~~~~~~~~~
crossval.cpp:187:50: note: returned from 'void* operator new [](std::size_t)'
  187 |         if ((test_indices = new int32_t[test_size]) == NULL)
      |                                                  ^
crossval.cpp:256:32: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  256 |                         delete in_test_set;
      |                                ^~~~~~~~~~~
crossval.cpp:193:44: note: returned from 'void* operator new [](std::size_t)'
  193 |         if ((in_test_set = new bool[n_samps]) == NULL)
      |                                            ^
crossval.cpp:268:16: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  268 |         delete train_indices;
      |                ^~~~~~~~~~~~~
crossval.cpp:184:52: note: returned from 'void* operator new [](std::size_t)'
  184 |         if ((train_indices = new int32_t[train_size]) == NULL)
      |                                                    ^
crossval.cpp:269:16: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  269 |         delete test_indices;
      |                ^~~~~~~~~~~~
crossval.cpp:187:50: note: returned from 'void* operator new [](std::size_t)'
  187 |         if ((test_indices = new int32_t[test_size]) == NULL)
      |                                                  ^
crossval.cpp:270:16: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  270 |         delete in_test_set;
      |                ^~~~~~~~~~~
crossval.cpp:193:44: note: returned from 'void* operator new [](std::size_t)'
  193 |         if ((in_test_set = new bool[n_samps]) == NULL)
      |                                            ^
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c errors.cpp -o errors.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c init.cpp -o init.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c messinaExtern.cpp -o messinaExtern.o
messinaExtern.cpp: In function 'STATUS convertRMatrix2Data(Rcpp::NumericMatrix&, Rcpp::LogicalVector&, Data&)':
messinaExtern.cpp:138:16: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  138 |         delete exprs_array;
      |                ^~~~~~~~~~~
messinaExtern.cpp:115:61: note: returned from 'void* operator new [](std::size_t)'
  115 |         if ((exprs_array = new uint16_t[n_probes * n_samples]) == NULL)
      |                                                             ^
messinaExtern.cpp:139:16: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
  139 |         delete class_array;
      |                ^~~~~~~~~~~
messinaExtern.cpp:119:46: note: returned from 'void* operator new [](std::size_t)'
  119 |         if ((class_array = new bool[n_samples]) == NULL)
      |                                              ^
messinaExtern.cpp: In function 'Rcpp::List messinaC(Rcpp::NumericMatrix, Rcpp::LogicalVector, uint32_t, uint32_t, float, float, bool, bool)':
messinaExtern.cpp:86:24: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
   86 |                 delete results;
      |                        ^~~~~~~
messinaExtern.cpp:78:51: note: returned from 'void* operator new [](std::size_t)'
   78 |         if ((results = new Result[data.getNGenes()]) == NULL)
      |                                                   ^
messinaExtern.cpp:92:16: warning: 'void operator delete(void*, std::size_t)' called on pointer returned from a mismatched allocation function [-Wmismatched-new-delete]
   92 |         delete results;
      |                ^~~~~~~
messinaExtern.cpp:78:51: note: returned from 'void* operator new [](std::size_t)'
   78 |         if ((results = new Result[data.getNGenes()]) == NULL)
      |                                                   ^
g++ -std=gnu++17 -shared -s -static-libgcc -o messina.dll tmp.def Classifier.o Data.o RcppExports.o crossval.o errors.o init.o messinaExtern.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.20-bioc/R/library/00LOCK-messina/00new/messina/libs/x64
** R
** data
** inst
** 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
* DONE (messina)