| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-12-01 12:02 -0500 (Mon, 01 Dec 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4878 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4610 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4669 |
| 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 1050/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| immApex 1.4.1 (landing page) Nick Borcherding
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | ERROR | OK | ERROR | |||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | ERROR | OK | ERROR | OK | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | ERROR | OK | ERROR | ||||||||||
|
To the developers/maintainers of the immApex package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/immApex.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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: immApex |
| Version: 1.4.1 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:immApex.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings immApex_1.4.1.tar.gz |
| StartedAt: 2025-11-28 10:55:53 -0000 (Fri, 28 Nov 2025) |
| EndedAt: 2025-11-28 10:56:04 -0000 (Fri, 28 Nov 2025) |
| EllapsedTime: 11.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: immApex.Rcheck |
| Warnings: NA |
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### Running command:
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### /home/biocbuild/R/R/bin/R CMD check --install=check:immApex.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings immApex_1.4.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/immApex.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘immApex/DESCRIPTION’ ... OK
* this is package ‘immApex’ version ‘1.4.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘immApex’ can be installed ... ERROR
Installation failed.
See ‘/home/biocbuild/bbs-3.22-bioc/meat/immApex.Rcheck/00install.out’ for details.
* DONE
Status: 1 ERROR
See
‘/home/biocbuild/bbs-3.22-bioc/meat/immApex.Rcheck/00check.log’
for details.
immApex.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL immApex ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’ * installing *source* package ‘immApex’ ... ** this is package ‘immApex’ version ‘1.4.1’ ** using staged installation ** libs using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’ using C++17 /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -Werror=format-security -c RcppExports.cpp -o RcppExports.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -Werror=format-security -c calculateMotif.cpp -o calculateMotif.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -Werror=format-security -c fastEditEdges.cpp -o fastEditEdges.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.5.0/lib -L/usr/local/lib -o immApex.so RcppExports.o calculateMotif.o encodeSequences.o fastEditEdges.o -fopenmp -L/home/biocbuild/R/R-4.5.0/lib -lR encodeSequences.o: file not recognized: file format not recognized collect2: error: ld returned 1 exit status make: *** [/home/biocbuild/R/R-4.5.0/share/make/shlib.mk:10: immApex.so] Error 1 ERROR: compilation failed for package ‘immApex’ * removing ‘/home/biocbuild/R/R-4.5.0/site-library/immApex’ * restoring previous ‘/home/biocbuild/R/R-4.5.0/site-library/immApex’