Benilton Carvalho
| Snapshot Date: 2025-03-23 13:40 -0400 (Sun, 23 Mar 2025) |
| git_url: https://git.bioconductor.org/packages/oligo |
| git_branch: devel |
| git_last_commit: e073acb |
| git_last_commit_date: 2025-03-08 15:38:43 -0400 (Sat, 08 Mar 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-03-24 11:42 -0400 (Mon, 24 Mar 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences" | 4779 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences" | 4550 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" | 4578 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" | 4530 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4461 |
| 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 1454/2313 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| oligo 1.71.7 (landing page) Benilton Carvalho
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | ERROR | ||||||||||
|
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: 1.71.7 |
| Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL oligo |
| StartedAt: 2025-03-23 16:07:24 -0400 (Sun, 23 Mar 2025) |
| EndedAt: 2025-03-23 16:08:45 -0400 (Sun, 23 Mar 2025) |
| EllapsedTime: 81.2 seconds |
| RetCode: 0 |
| Status: OK |
##############################################################################
##############################################################################
###
### Running command:
###
### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL oligo
###
##############################################################################
##############################################################################
* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'oligo' ...
** this is package 'oligo' version '1.71.7'
** using staged installation
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
using C compiler: 'gcc.exe (GCC) 14.2.0'
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -DHAVE_ZLIB -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c DABG.c -o DABG.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -DHAVE_ZLIB -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c ParserGzXYS.c -o ParserGzXYS.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -DHAVE_ZLIB -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c ParserXYS.c -o ParserXYS.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -DHAVE_ZLIB -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c baseProfile.c -o baseProfile.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -DHAVE_ZLIB -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c basecontent.c -o basecontent.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -DHAVE_ZLIB -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c chipbackground.c -o chipbackground.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -DHAVE_ZLIB -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c mas5calls.c -o mas5calls.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -DHAVE_ZLIB -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c rma2.c -o rma2.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -DHAVE_ZLIB -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c rma_common.c -o rma_common.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -DHAVE_ZLIB -I'E:/biocbuild/bbs-3.21-bioc/R/library/preprocessCore/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c trimmed.c -o trimmed.o
gcc -shared -s -static-libgcc -o oligo.dll tmp.def DABG.o ParserGzXYS.o ParserXYS.o baseProfile.o basecontent.o chipbackground.o mas5calls.o rma2.o rma_common.o trimmed.o -lgfortran -lquadmath -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lRlapack -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lRblas -lz -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-oligo/00new/oligo/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
Note: in method for 'pm<-' with signature
'object="TilingFeatureSet",subset="ANY",target="ANY",value="array"':
expanding the signature to include omitted arguments in definition:
subset = "missing", target = "missing"
Note: in method for 'mm<-' with signature
'object="TilingFeatureSet",subset="ANY",target="ANY",value="array"':
expanding the signature to include omitted arguments in definition:
subset = "missing", target = "missing"
** 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 (oligo)