Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-11-20 12:07 -0500 (Wed, 20 Nov 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4481 |
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4479 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4359 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4539 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4493 |
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 223/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
biovizBase 1.54.0 (landing page) Michael Lawrence
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | WARNINGS | ||||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
To the developers/maintainers of the biovizBase package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biovizBase.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: biovizBase |
Version: 1.54.0 |
Command: /home/biocbuild/R/R/bin/R CMD INSTALL biovizBase |
StartedAt: 2024-11-19 21:01:41 -0000 (Tue, 19 Nov 2024) |
EndedAt: 2024-11-19 21:02:45 -0000 (Tue, 19 Nov 2024) |
EllapsedTime: 64.3 seconds |
RetCode: 0 |
Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL biovizBase ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.4.1/site-library’ * installing *source* package ‘biovizBase’ ... ** using staged installation ** libs using C compiler: ‘gcc (conda-forge gcc 14.2.0-1) 14.2.0’ gcc -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -c R_init_biovizBase.c -o R_init_biovizBase.o gcc -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -Wall -c bin_offsets.c -o bin_offsets.o In file included from /home/biocbuild/miniforge3/aarch64-conda-linux-gnu/sysroot/usr/include/string.h:633, from /home/biocbuild/R/R-4.4.1/include/R_ext/RS.h:34, from /home/biocbuild/R/R-4.4.1/include/Rdefines.h:38, from bin_offsets.h:1, from bin_offsets.c:3: bin_offsets.c: In function 'scan_bam_bin_offsets': bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of 'strlen' differ in signedness [-Wpointer-sign] 57 | if (strncmp(b, "BAI\1", 4)) | ^ | | | Rbyte * {aka unsigned char *} /home/biocbuild/miniforge3/aarch64-conda-linux-gnu/sysroot/usr/include/string.h:395:35: note: expected 'const char *' but argument is of type 'Rbyte *' {aka 'unsigned char *'} 395 | extern size_t strlen (const char *__s) | ~~~~~~~~~~~~^~~ bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of 'strlen' differ in signedness [-Wpointer-sign] 57 | if (strncmp(b, "BAI\1", 4)) | ^ | | | Rbyte * {aka unsigned char *} /home/biocbuild/miniforge3/aarch64-conda-linux-gnu/sysroot/usr/include/string.h:395:35: note: expected 'const char *' but argument is of type 'Rbyte *' {aka 'unsigned char *'} 395 | extern size_t strlen (const char *__s) | ~~~~~~~~~~~~^~~ bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of '__builtin_strcmp' differ in signedness [-Wpointer-sign] 57 | if (strncmp(b, "BAI\1", 4)) | ^ | | | Rbyte * {aka unsigned char *} bin_offsets.c:57:15: note: expected 'const char *' but argument is of type 'Rbyte *' {aka 'unsigned char *'} bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of 'strlen' differ in signedness [-Wpointer-sign] 57 | if (strncmp(b, "BAI\1", 4)) | ^ | | | Rbyte * {aka unsigned char *} /home/biocbuild/miniforge3/aarch64-conda-linux-gnu/sysroot/usr/include/string.h:395:35: note: expected 'const char *' but argument is of type 'Rbyte *' {aka 'unsigned char *'} 395 | extern size_t strlen (const char *__s) | ~~~~~~~~~~~~^~~ bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of '__builtin_strcmp' differ in signedness [-Wpointer-sign] 57 | if (strncmp(b, "BAI\1", 4)) | ^ | | | Rbyte * {aka unsigned char *} bin_offsets.c:57:15: note: expected 'const char *' but argument is of type 'Rbyte *' {aka 'unsigned char *'} bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of '__builtin_strcmp' differ in signedness [-Wpointer-sign] 57 | if (strncmp(b, "BAI\1", 4)) | ^ | | | Rbyte * {aka unsigned char *} bin_offsets.c:57:15: note: expected 'const char *' but argument is of type 'Rbyte *' {aka 'unsigned char *'} bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of '__builtin_strcmp' differ in signedness [-Wpointer-sign] 57 | if (strncmp(b, "BAI\1", 4)) | ^ | | | Rbyte * {aka unsigned char *} bin_offsets.c:57:15: note: expected 'const char *' but argument is of type 'Rbyte *' {aka 'unsigned char *'} bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of 'strncmp' differ in signedness [-Wpointer-sign] 57 | if (strncmp(b, "BAI\1", 4)) | ^ | | | Rbyte * {aka unsigned char *} /home/biocbuild/miniforge3/aarch64-conda-linux-gnu/sysroot/usr/include/string.h:143:33: note: expected 'const char *' but argument is of type 'Rbyte *' {aka 'unsigned char *'} 143 | extern int strncmp (const char *__s1, const char *__s2, size_t __n) | ~~~~~~~~~~~~^~~~ gcc -shared -L/home/biocbuild/R/R-4.4.1/lib -L/usr/local/lib -o biovizBase.so R_init_biovizBase.o bin_offsets.o -L/home/biocbuild/R/R-4.4.1/lib -lR installing to /home/biocbuild/R/R-4.4.1/site-library/00LOCK-biovizBase/00new/biovizBase/libs ** R ** data *** moving datasets to lazyload DB ** 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 (biovizBase)