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This page was generated on 2024-03-01 11:38:57 -0500 (Fri, 01 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_64R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" 4676
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2024-01-14 r85805 ucrt) -- "Unsuffered Consequences" 4414
merida1macOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-01-16 r85808) -- "Unsuffered Consequences" 4441
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-01-16 r85812) -- "Unsuffered Consequences" 4417
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 808/2251HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
geneXtendeR 1.29.0  (landing page)
Bohdan Khomtchouk
Snapshot Date: 2024-02-28 14:00:14 -0500 (Wed, 28 Feb 2024)
git_url: https://git.bioconductor.org/packages/geneXtendeR
git_branch: devel
git_last_commit: 8f1e0a9
git_last_commit_date: 2023-10-24 10:53:12 -0500 (Tue, 24 Oct 2023)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino3Windows 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
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    WARNINGS  

INSTALL results for geneXtendeR on merida1


To the developers/maintainers of the geneXtendeR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/geneXtendeR.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: geneXtendeR
Version: 1.29.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL geneXtendeR
StartedAt: 2024-02-28 15:57:09 -0500 (Wed, 28 Feb 2024)
EndedAt: 2024-02-28 15:59:00 -0500 (Wed, 28 Feb 2024)
EllapsedTime: 111.4 seconds
RetCode: 0
Status:   OK  

Command output

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library’
* installing *source* package ‘geneXtendeR’ ...
** 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 x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c annotate.c -o annotate.o
annotate.c:159:94: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
                Rf_error("annotate() doesn't handle output lines longer than %d characters", sizeof(Buffer));
                                                                             ~~              ^~~~~~~~~~~~~~
                                                                             %lu
annotate.c:191:101: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
                        Rf_error("annotate() doesn't handle output lines longer than %d characters",sizeof(Buffer));
                                                                                     ~~             ^~~~~~~~~~~~~~
                                                                                     %lu
annotate.c:199:101: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
                        Rf_error("annotate() doesn't handle output lines longer than %d characters",sizeof(Buffer));
                                                                                     ~~             ^~~~~~~~~~~~~~
                                                                                     %lu
annotate.c:208:101: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
                        Rf_error("annotate() doesn't handle output lines longer than %d characters",sizeof(Buffer));
                                                                                     ~~             ^~~~~~~~~~~~~~
                                                                                     %lu
annotate.c:228:97: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
                    Rf_error("annotate() doesn't handle output lines longer than %d characters",sizeof(Buffer));
                                                                                 ~~             ^~~~~~~~~~~~~~
                                                                                 %lu
5 warnings generated.
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c extract_number.c -o extract_number.o
extract_number.c:66:10: warning: variable 'j_1' set but not used [-Wunused-but-set-variable]
    long j_1;
         ^
extract_number.c:52:12: warning: variable 'pvcfcol3_3' set but not used [-Wunused-but-set-variable]
    char * pvcfcol3_3;
           ^
extract_number.c:72:10: warning: variable 'n_1' set but not used [-Wunused-but-set-variable]
    long n_1;
         ^
extract_number.c:51:12: warning: variable 'pvcfcol2_2' set but not used [-Wunused-but-set-variable]
    char * pvcfcol2_2;
           ^
extract_number.c:50:12: warning: variable 'pvcfcol1_1' set but not used [-Wunused-but-set-variable]
    char * pvcfcol1_1;
           ^
extract_number.c:54:12: warning: variable 'pvcfcol5_5' set but not used [-Wunused-but-set-variable]
    char * pvcfcol5_5;
           ^
extract_number.c:53:12: warning: variable 'pvcfcol4_4' set but not used [-Wunused-but-set-variable]
    char * pvcfcol4_4;
           ^
7 warnings generated.
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c extract_peaks.c -o extract_peaks.o
extract_peaks.c:202:94: warning: format specifies type 'int' but the argument has type 'unsigned long' [-Wformat]
                Rf_error("annotate() doesn't handle output lines longer than %d characters", sizeof(Buffer));
                                                                             ~~              ^~~~~~~~~~~~~~
                                                                             %lu
1 warning generated.
clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o geneXtendeR.so annotate.o extract_number.o extract_peaks.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.4-x86_64/Resources/library/00LOCK-geneXtendeR/00new/geneXtendeR/libs
** R
** data
*** moving datasets to lazyload DB
** 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 (geneXtendeR)