| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-01-24 11:40 -0500 (Fri, 24 Jan 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4609 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" | 4393 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 3839 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 3835 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" | 4408 |
| 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 1439/2286 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| oligo 1.71.0 (landing page) Benilton Carvalho
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | ERROR | ERROR | skipped | |||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | ERROR | ERROR | skipped | skipped | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | ERROR | ERROR | skipped | skipped | |||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | ERROR | ERROR | skipped | skipped | |||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | ERROR | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the oligo package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/oligo.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. |
| Package: oligo |
| Version: 1.71.0 |
| Command: chmod a+r oligo -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data oligo |
| StartedAt: 2025-01-23 20:29:42 -0500 (Thu, 23 Jan 2025) |
| EndedAt: 2025-01-23 20:30:06 -0500 (Thu, 23 Jan 2025) |
| EllapsedTime: 24.9 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### chmod a+r oligo -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data oligo
###
##############################################################################
##############################################################################
* checking for file 'oligo/DESCRIPTION' ... OK
* preparing 'oligo':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running 'cleanup.win'
* installing the package to build vignettes
-----------------------------------
* installing *source* package 'oligo' ...
** this is package 'oligo' version '1.71.0'
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 13.3.0'
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/library/zlibbioc/include" -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c DABG.c -o DABG.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/library/zlibbioc/include" -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c ParserGzXYS.c -o ParserGzXYS.o
ParserGzXYS.c: In function 'gzxys_header_field':
ParserGzXYS.c:62:11: warning: implicit declaration of function 'Calloc'; did you mean 'calloc'? [-Wimplicit-function-declaration]
62 | final = Calloc(strlen(result)+1, char);
| ^~~~~~
| calloc
ParserGzXYS.c:62:36: error: expected expression before 'char'
62 | final = Calloc(strlen(result)+1, char);
| ^~~~
ParserGzXYS.c: In function 'R_read_gzxys_files':
ParserGzXYS.c:147:9: warning: implicit declaration of function 'Free'; did you mean 'free'? [-Wimplicit-function-declaration]
147 | Free(d0);
| ^~~~
| free
make: *** [Makevars.win:11: ParserGzXYS.o] Error 1
ERROR: compilation failed for package 'oligo'
* removing 'E:/biocbuild/bbs-3.21-bioc/tmpdir/Rtmpe4vtjh/Rinst1ec401d3c6401/oligo'
-----------------------------------
ERROR: package installation failed