Back to Mac ARM64 build report for BioC 3.17
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2023-10-20 09:38:06 -0400 (Fri, 20 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson2macOS 12.6.1 Montereyarm644.3.1 (2023-06-16) -- "Beagle Scouts" 4347
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 1256/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
mitoClone2 1.6.0  (landing page)
Benjamin Story
Snapshot Date: 2023-10-15 14:00:07 -0400 (Sun, 15 Oct 2023)
git_url: https://git.bioconductor.org/packages/mitoClone2
git_branch: RELEASE_3_17
git_last_commit: add7e6c
git_last_commit_date: 2023-04-25 11:31:33 -0400 (Tue, 25 Apr 2023)
kjohnson2macOS 12.6.1 Monterey / arm64  ERROR    ERROR  skippedskipped

INSTALL results for mitoClone2 on kjohnson2


To the developers/maintainers of the mitoClone2 package:
- 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: mitoClone2
Version: 1.6.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL mitoClone2
StartedAt: 2023-10-15 17:16:27 -0400 (Sun, 15 Oct 2023)
EndedAt: 2023-10-15 17:16:44 -0400 (Sun, 15 Oct 2023)
EllapsedTime: 16.3 seconds
RetCode: 1
Status:   ERROR  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL mitoClone2
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘mitoClone2’ ...
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch arm64 -std=gnu++17 -D_FILE_OFFSET_BITS=64 ../inst/SCITEpkg/*.cpp -o scite
../inst/SCITEpkg/findBestTrees.cpp:100:141: error: reference to 'sample' is ambiguous
        sampleOutput = runMCMCbeta(optimalTrees, errorRates, rep, loops, gamma, moveProbs, n, m, dataMatrix, scoreType, trueParentVec, sampleStep, sample, chi, priorSd, useTreeList, treeType);
                                                                                                                                                   ^
../inst/SCITEpkg/findBestTrees.cpp:61:6: note: candidate found by name lookup is 'sample'
bool sample = false;
     ^
/Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/algorithm:3227:17: note: candidate found by name lookup is 'std::sample'
_SampleIterator sample(_PopulationIterator __first,
                ^
../inst/SCITEpkg/findBestTrees.cpp:289:5: error: reference to 'sample' is ambiguous
                                sample = true;
                                ^
../inst/SCITEpkg/findBestTrees.cpp:61:6: note: candidate found by name lookup is 'sample'
bool sample = false;
     ^
/Library/Developer/CommandLineTools/SDKs/MacOSX11.sdk/usr/include/c++/v1/algorithm:3227:17: note: candidate found by name lookup is 'std::sample'
_SampleIterator sample(_PopulationIterator __first,
                ^
2 errors generated.
../inst/SCITEpkg/mcmcBinTreeMove.cpp:75:1: warning: non-void function does not return a value in all control paths [-Wreturn-type]
}
^
1 warning generated.
make: *** [scite] Error 1
ERROR: compilation failed for package ‘mitoClone2’
* removing ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library/mitoClone2’