Benjamin Story
| Snapshot Date: 2026-04-17 13:40 -0400 (Fri, 17 Apr 2026) |
| git_url: https://git.bioconductor.org/packages/mitoClone2 |
| git_branch: devel |
| git_last_commit: 0ee32de |
| git_last_commit_date: 2025-10-29 11:11:00 -0400 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-04-18 11:37 -0400 (Sat, 18 Apr 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 alpha (2026-04-05 r89794) | 4957 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.6.0 alpha (2026-04-08 r89818) | 4686 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4627 |
| 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 1354/2404 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| mitoClone2 1.17.0 (landing page) Benjamin Story
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | ERROR | ERROR | skipped | ||||||||||
| See other builds for mitoClone2 in R Universe. | ||||||||||||||
|
To the developers/maintainers of the mitoClone2 package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/mitoClone2.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: mitoClone2 |
| Version: 1.17.0 |
| Command: /home/biocbuild/R/R/bin/R CMD INSTALL mitoClone2 |
| StartedAt: 2026-04-16 21:08:55 -0000 (Thu, 16 Apr 2026) |
| EndedAt: 2026-04-16 21:09:10 -0000 (Thu, 16 Apr 2026) |
| EllapsedTime: 14.6 seconds |
| RetCode: 1 |
| Status: ERROR |
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### Running command:
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### /home/biocbuild/R/R/bin/R CMD INSTALL mitoClone2
###
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* installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’
* installing *source* package ‘mitoClone2’ ...
** this is package ‘mitoClone2’ version ‘1.17.0’
** using staged installation
** libs
using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -D_FILE_OFFSET_BITS=64 ../inst/SCITEpkg/*.cpp -o scite
../inst/SCITEpkg/findBestTrees.cpp:58:8: warning: built-in function ‘gamma’ declared as non-function [-Wbuiltin-declaration-mismatch]
58 | double gamma = 1;
| ^~~~~
mkdir -p "/home/biocbuild/R/R-devel_2025-02-19/site-library/00LOCK-mitoClone2/00new/mitoClone2/SCITE/"
cp scite "/home/biocbuild/R/R-devel_2025-02-19/site-library/00LOCK-mitoClone2/00new/mitoClone2/SCITE/"
rm scite
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c bam2R_10x.cpp -o bam2R_10x.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R/lib -L/usr/local/lib -o mitoClone2.so bam2R_10x.o /home/biocbuild/R/R-devel_2025-02-19/site-library/Rhtslib/usrlib/libhts.a -lcurl -lbz2 -llzma -lz -L/home/biocbuild/R/R/lib -lR
/usr/bin/ld: cannot find -lcurl: No such file or directory
collect2: error: ld returned 1 exit status
make: *** [/home/biocbuild/R/R/share/make/shlib.mk:10: mitoClone2.so] Error 1
ERROR: compilation failed for package ‘mitoClone2’
* removing ‘/home/biocbuild/R/R-devel_2025-02-19/site-library/mitoClone2’
* restoring previous ‘/home/biocbuild/R/R-devel_2025-02-19/site-library/mitoClone2’