Back to Multiple platform build/check report for BioC 3.16
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2022-07-11 11:06:49 -0400 (Mon, 11 Jul 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4148
lconwaymacOS 12.2.1 Montereyx86_644.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" 4168
kjohnsonmacOS 12.4 Montereyarm644.2.1 (2022-06-23) -- "Funny-Looking Kid" 3545
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

INSTALL results for maftools on kjohnson


To the developers/maintainers of the maftools package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/maftools.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1056/2130HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
maftools 2.13.0  (landing page)
Anand Mayakonda
Snapshot Date: 2022-07-10 14:00:02 -0400 (Sun, 10 Jul 2022)
git_url: https://git.bioconductor.org/packages/maftools
git_branch: master
git_last_commit: 07aa856
git_last_commit_date: 2022-04-26 11:33:50 -0400 (Tue, 26 Apr 2022)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.2.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnsonmacOS 12.4 Monterey / arm64  OK    NA    NA    NA  

Summary

Package: maftools
Version: 2.13.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL maftools
StartedAt: 2022-07-10 16:30:00 -0400 (Sun, 10 Jul 2022)
EndedAt: 2022-07-10 16:30:25 -0400 (Sun, 10 Jul 2022)
EllapsedTime: 25.1 seconds
RetCode: 0
Status:   OK  

Command output

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library’
* installing *source* package ‘maftools’ ...
** using staged installation
** libs
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/zlibbioc/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c ntcounts.c -o ntcounts.o
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/zlibbioc/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c snpcounts.c -o snpcounts.o
snpcounts.c:56:26: warning: passing 'const char *' to parameter of type 'char *' discards qualifiers [-Wincompatible-pointer-types-discards-qualifiers]
  int nloci = countlines(bedfile);
                         ^~~~~~~
snpcounts.c:13:22: note: passing argument to parameter 'filename' here
int countlines(char *filename){
                     ^
snpcounts.c:56:7: warning: unused variable 'nloci' [-Wunused-variable]
  int nloci = countlines(bedfile);
      ^
2 warnings generated.
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rhtslib/include' -I'/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/zlibbioc/include' -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -Wall -g -O2  -c somaticfreq.c -o somaticfreq.o
clang -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o maftools.so ntcounts.o snpcounts.o somaticfreq.o /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/Rhtslib/usrlib/libhts.a -lcurl -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/00LOCK-maftools/00new/maftools/libs
** R
** 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
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (maftools)