Hervé Pagès
| Snapshot Date: 2025-08-28 13:40 -0400 (Thu, 28 Aug 2025) |
| git_url: https://git.bioconductor.org/packages/h5mread |
| git_branch: RELEASE_3_21 |
| git_last_commit: 1719e52 |
| git_last_commit_date: 2025-05-15 14:48:59 -0400 (Thu, 15 May 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-09-01 11:42 -0400 (Mon, 01 Sep 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4824 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4606 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4547 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4579 |
| 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 948/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| h5mread 1.0.1 (landing page) Hervé Pagès
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | WARNINGS | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | ERROR | ||||||||||
|
To the developers/maintainers of the h5mread package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/h5mread.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: h5mread |
| Version: 1.0.1 |
| Command: /home/biocbuild/R/R/bin/R CMD INSTALL h5mread |
| StartedAt: 2025-08-28 20:48:53 -0000 (Thu, 28 Aug 2025) |
| EndedAt: 2025-08-28 20:49:23 -0000 (Thu, 28 Aug 2025) |
| EllapsedTime: 29.9 seconds |
| RetCode: 0 |
| Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL h5mread ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’ * installing *source* package ‘h5mread’ ... ** this is package ‘h5mread’ version ‘1.0.1’ ** using staged installation ** libs using C compiler: ‘aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0’ /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c S4Vectors_stubs.c -o S4Vectors_stubs.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c H5File.c -o H5File.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c global_errmsg_buf.c -o global_errmsg_buf.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c H5DSetDescriptor.c -o H5DSetDescriptor.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c h5dimscales.c -o h5dimscales.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c uaselection.c -o uaselection.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c h5mread_helpers.c -o h5mread_helpers.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c h5mread_startscounts.c -o h5mread_startscounts.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c TouchedChunks.c -o TouchedChunks.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c h5mread_index.c -o h5mread_index.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c h5mread_sparse.c -o h5mread_sparse.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c h5mread.c -o h5mread.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c h5summarize.c -o h5summarize.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/S4Vectors/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c R_init_h5mread.c -o R_init_h5mread.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -shared -L/home/biocbuild/R/R/lib -L/usr/local/lib -o h5mread.so S4Vectors_stubs.o H5File.o global_errmsg_buf.o H5DSetDescriptor.o h5dimscales.o uaselection.o h5mread_helpers.o h5mread_startscounts.o TouchedChunks.o h5mread_index.o h5mread_sparse.o h5mread.o h5summarize.o R_init_h5mread.o /home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/lib/libhdf5_hl.a /home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/lib/libhdf5.a -L/home/biocbuild/R/R-devel_2025-02-19/site-library/Rhdf5lib/lib -lsz -laec -lz -ldl -lm -L/home/biocbuild/R/R/lib -lR installing to /home/biocbuild/R/R-devel_2025-02-19/site-library/00LOCK-h5mread/00new/h5mread/libs ** R ** 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 (h5mread)