Michael Lawrence
| Snapshot Date: 2024-03-27 14:00:18 -0400 (Wed, 27 Mar 2024) |
| git_url: https://git.bioconductor.org/packages/rsbml |
| git_branch: devel |
| git_last_commit: ab3e650 |
| git_last_commit_date: 2023-10-24 09:39:01 -0400 (Tue, 24 Oct 2023) |
| Back to Multiple platform build/check report for BioC 3.19: simplified long |
|
This page was generated on 2024-03-28 11:41:15 -0400 (Thu, 28 Mar 2024).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4708 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2024-03-16 r86144 ucrt) -- "Unsuffered Consequences" | 4446 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2024-03-18 r86148) -- "Unsuffered Consequences" | 4471 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | R Under development (unstable) (2024-03-19 r86153) -- "Unsuffered Consequences" | 4426 |
| 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 1802/2270 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| rsbml 2.61.0 (landing page) Michael Lawrence
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | ... NOT SUPPORTED ... | ||||||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | ERROR | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the rsbml package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/rsbml.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: rsbml |
| Version: 2.61.0 |
| Command: /home/biocbuild/R/R-4.4-devel-2024.03.20/bin/R CMD INSTALL rsbml |
| StartedAt: 2024-03-27 19:29:19 -0000 (Wed, 27 Mar 2024) |
| EndedAt: 2024-03-27 19:29:55 -0000 (Wed, 27 Mar 2024) |
| EllapsedTime: 36.4 seconds |
| RetCode: 1 |
| Status: ERROR |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.4-devel-2024.03.20/bin/R CMD INSTALL rsbml ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library’ * installing *source* package ‘rsbml’ ... ** using staged installation checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for LIBSBML... yes configure: === Begin local SOSLib build === checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking build system type... config/config.guess: unable to guess system type This script, last modified 2008-01-23, has failed to recognize the operating system you are using. It is advised that you download the most up to date version of the config scripts from http://git.savannah.gnu.org/gitweb/?p=config.git;a=blob_plain;f=config.guess;hb=HEAD and http://git.savannah.gnu.org/gitweb/?p=config.git;a=blob_plain;f=config.sub;hb=HEAD If the version you run (config/config.guess) is already up to date, please send the following data and any information you think might be pertinent to <config-patches@gnu.org> in order to provide the needed information to handle your system. config.guess timestamp = 2008-01-23 uname -m = aarch64 uname -r = 5.10.0-136.63.0.143.oe2203sp1.aarch64 uname -s = Linux uname -v = #1 SMP Tue Feb 6 13:53:32 CST 2024 /usr/bin/uname -p = aarch64 /bin/uname -X = hostinfo = /bin/universe = /usr/bin/arch -k = /bin/arch = aarch64 /usr/bin/oslevel = /usr/convex/getsysinfo = UNAME_MACHINE = aarch64 UNAME_RELEASE = 5.10.0-136.63.0.143.oe2203sp1.aarch64 UNAME_SYSTEM = Linux UNAME_VERSION = #1 SMP Tue Feb 6 13:53:32 CST 2024 configure: error: cannot guess build type; you must specify one configure: === End local SOSLib build === configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: ‘gcc (GCC) 10.3.1’ using C++ compiler: ‘g++ (GCC) 10.3.1’ gcc -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I/home/biocbuild/libsbml-from-git/include -I/usr/include/libxml2 -I/usr/local/include -fPIC -g -O2 -Wall -c StringMap.c -o StringMap.o gcc -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I/home/biocbuild/libsbml-from-git/include -I/usr/include/libxml2 -I/usr/local/include -fPIC -g -O2 -Wall -c check.c -o check.o gcc -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I/home/biocbuild/libsbml-from-git/include -I/usr/include/libxml2 -I/usr/local/include -fPIC -g -O2 -Wall -c doc.c -o doc.o gcc -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I/home/biocbuild/libsbml-from-git/include -I/usr/include/libxml2 -I/usr/local/include -fPIC -g -O2 -Wall -c dom.c -o dom.o gcc -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I/home/biocbuild/libsbml-from-git/include -I/usr/include/libxml2 -I/usr/local/include -fPIC -g -O2 -Wall -c graph.c -o graph.o gcc -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I/home/biocbuild/libsbml-from-git/include -I/usr/include/libxml2 -I/usr/local/include -fPIC -g -O2 -Wall -c init.c -o init.o gcc -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I/home/biocbuild/libsbml-from-git/include -I/usr/include/libxml2 -I/usr/local/include -fPIC -g -O2 -Wall -c io.c -o io.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I/home/biocbuild/libsbml-from-git/include -I/usr/include/libxml2 -I/usr/local/include -fPIC -g -O2 -Wall -c layoutWrappers.cpp -o layoutWrappers.o gcc -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I/home/biocbuild/libsbml-from-git/include -I/usr/include/libxml2 -I/usr/local/include -fPIC -g -O2 -Wall -c mathml.c -o mathml.o gcc -I"/home/biocbuild/R/R-4.4-devel-2024.03.20/include" -DNDEBUG -I/home/biocbuild/libsbml-from-git/include -I/usr/include/libxml2 -I/usr/local/include -fPIC -g -O2 -Wall -c simulate.c -o simulate.o g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.4-devel-2024.03.20/lib -L/usr/local/lib -o rsbml.so StringMap.o check.o doc.o dom.o graph.o init.o io.o layoutWrappers.o mathml.o simulate.o -L/home/biocbuild/libsbml-from-git/lib -lsbml -L/home/biocbuild/R/R-4.4-devel-2024.03.20/lib -lR installing to /home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/00LOCK-rsbml/00new/rsbml/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 Error: package or namespace load failed for ‘rsbml’: .onLoad failed in loadNamespace() for 'rsbml', details: call: dyn.load(file, DLLpath = DLLpath, ...) error: unable to load shared object '/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/00LOCK-rsbml/00new/rsbml/libs/rsbml.so': /home/biocbuild/libsbml-from-git/lib/libsbml.so.5: undefined symbol: _ZTI13ElementFilter Error: loading failed Execution halted ERROR: loading failed * removing ‘/home/biocbuild/R/R-4.4-devel-2024.03.20/site-library/rsbml’