Nicholas Cooley
| Snapshot Date: 2025-03-23 13:40 -0400 (Sun, 23 Mar 2025) |
| git_url: https://git.bioconductor.org/packages/SynExtend |
| git_branch: devel |
| git_last_commit: a54b754 |
| git_last_commit_date: 2025-03-13 18:05:38 -0400 (Thu, 13 Mar 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-03-24 11:43 -0400 (Mon, 24 Mar 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences" | 4779 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences" | 4550 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" | 4578 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" | 4530 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4461 |
| 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 2123/2313 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| SynExtend 1.19.8 (landing page) Nicholas Cooley
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the SynExtend package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SynExtend.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. |
| Package: SynExtend |
| Version: 1.19.8 |
| Command: rm -rf SynExtend.buildbin-libdir && mkdir SynExtend.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=SynExtend.buildbin-libdir SynExtend_1.19.8.tar.gz |
| StartedAt: 2025-03-24 09:06:37 -0400 (Mon, 24 Mar 2025) |
| EndedAt: 2025-03-24 09:08:05 -0400 (Mon, 24 Mar 2025) |
| EllapsedTime: 87.9 seconds |
| RetCode: 0 |
| Status: OK |
| PackageFile: SynExtend_1.19.8.zip |
| PackageFileSize: 4.109 MiB |
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### Running command:
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### rm -rf SynExtend.buildbin-libdir && mkdir SynExtend.buildbin-libdir && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL --build --library=SynExtend.buildbin-libdir SynExtend_1.19.8.tar.gz
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* installing *source* package 'SynExtend' ...
** this is package 'SynExtend' version '1.19.8'
** using staged installation
** libs
using C compiler: 'gcc.exe (GCC) 14.2.0'
using Fortran compiler: 'GNU Fortran (GCC) 14.2.0'
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c CDend.c -o CDend.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c CShuffle.c -o CShuffle.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c HungarianAlgo.c -o HungarianAlgo.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c LoserTree.c -o LoserTree.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c MoranI.c -o MoranI.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c NucleotideCounts.c -o NucleotideCounts.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c OnDiskLP.c -o OnDiskLP.o
In function 'update_node_cluster',
inlined from 'cluster_file' at OnDiskLP.c:1633:5:
OnDiskLP.c:1515:9: warning: 'max_weight' may be used uninitialized [-Wmaybe-uninitialized]
1515 | if(max_weight < cur_weight){
| ^
OnDiskLP.c: In function 'cluster_file':
OnDiskLP.c:1508:10: note: 'max_weight' was declared here
1508 | double max_weight, cur_weight=0, cur_error=0;
| ^~~~~~~~~~
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c PrefixTrie.c -o PrefixTrie.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c R_init_synextend.c -o R_init_synextend.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c RandomForest.c -o RandomForest.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c SEutils.c -o SEutils.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c XORRand.c -o XORRand.o
gfortran -O2 -mfpmath=sse -msse2 -mstackrealign -c _fortran_tabulate.f95 -o _fortran_tabulate.o
gfortran -O2 -mfpmath=sse -msse2 -mstackrealign -c _fortran_utils.f95 -o _fortran_utils.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c calcMIR2C.c -o calcMIR2C.o
gfortran -O2 -mfpmath=sse -msse2 -mstackrealign -c cart_fort.f95 -o cart_fort.o
gcc -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -fopenmp -O2 -Wall -std=gnu2x -mfpmath=sse -msse2 -mstackrealign -c dendrapply.c -o dendrapply.o
gcc -shared -s -static-libgcc -o SynExtend.dll tmp.def CDend.o CShuffle.o HungarianAlgo.o LoserTree.o MoranI.o NucleotideCounts.o OnDiskLP.o PrefixTrie.o R_init_synextend.o RandomForest.o SEutils.o XORRand.o _fortran_tabulate.o _fortran_utils.o calcMIR2C.o cart_fort.o dendrapply.o -fopenmp -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib -lgfortran -lquadmath -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR
installing to E:/biocbuild/bbs-3.21-bioc/meat/SynExtend.buildbin-libdir/00LOCK-SynExtend/00new/SynExtend/libs/x64
** R
** data
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* MD5 sums
packaged installation of 'SynExtend' as SynExtend_1.19.8.zip
* DONE (SynExtend)