Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-21 11:45 -0400 (Wed, 21 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4414 |
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 364/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
cliqueMS 1.19.2 (landing page) Oriol Senan Campos
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | ERROR | ERROR | skipped | |||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | ERROR | ERROR | skipped | skipped | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | ERROR | ERROR | skipped | skipped | |||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | ERROR | ERROR | skipped | skipped | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | ERROR | ERROR | skipped | ||||||||||
To the developers/maintainers of the cliqueMS package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cliqueMS.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: cliqueMS |
Version: 1.19.2 |
Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data cliqueMS |
StartedAt: 2024-08-20 21:16:50 -0000 (Tue, 20 Aug 2024) |
EndedAt: 2024-08-20 21:17:34 -0000 (Tue, 20 Aug 2024) |
EllapsedTime: 44.1 seconds |
RetCode: 1 |
Status: ERROR |
PackageFile: None |
PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data cliqueMS ### ############################################################################## ############################################################################## * checking for file ‘cliqueMS/DESCRIPTION’ ... OK * preparing ‘cliqueMS’: * checking DESCRIPTION meta-information ... OK * cleaning src * installing the package to build vignettes ----------------------------------- * installing *source* package ‘cliqueMS’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (GCC) 10.3.1’ using C++11 g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/BH/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/BH/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c findAnnotationR.cpp -o findAnnotationR.o In file included from findAnnotationR.cpp:1: annotationCliqueMSR.h: In function ‘std::vector<std::pair<double, double> > sortMass(annotData&, int, std::unordered_map<double, std::pair<double, double> >, int)’: annotationCliqueMSR.h:440:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::pair<double, double> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 440 | if(id < allM.size()) // not add more masses in case that for that feature are less than "n" top masses | ~~~^~~~~~~~~~~~~ annotationCliqueMSR.h: In function ‘std::unordered_set<double> getTopScoringMasses(annotData&, int, rawadList, int, int, double)’: annotationCliqueMSR.h:476:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::pair<double, double> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 476 | if(id < allM.size()) // not add more masses in case that there are less than "n" top masses | ~~~^~~~~~~~~~~~~ annotationCliqueMSR.h: In function ‘std::vector<int> sortAnnotations(std::unordered_map<int, Annotation>&, int)’: annotationCliqueMSR.h:725:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector<std::pair<double, int> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 725 | if(id < allAn.size() ) | ~~~^~~~~~~~~~~~~~ annotationCliqueMSR.h: In function ‘double computeMaxScore(std::vector<double>&, int, double)’: annotationCliqueMSR.h:739:24: warning: ‘completeroundscore’ may be used uninitialized in this function [-Wmaybe-uninitialized] 739 | completeroundscore += *ritv; | ~~~~~~~~~~~~~~~~~~~^~~~~~~~ g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/BH/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c findCliquesR.cpp -o findCliquesR.o g++ -std=gnu++11 -I"/home/biocbuild/R/R-4.4.1/include" -DNDEBUG -I'/home/biocbuild/R/R-4.4.1/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.4.1/site-library/BH/include' -I'/home/biocbuild/R/R-4.4.1/site-library/RcppArmadillo/include' -I/usr/local/include -fopenmp -fPIC -g -O2 -Wall -c findIsotopesR.cpp -o findIsotopesR.o g++ -std=gnu++11 -shared -L/home/biocbuild/R/R-4.4.1/lib -L/usr/local/lib -o cliqueMS.so RcppExports.o findAnnotationR.o findCliquesR.o findIsotopesR.o -fopenmp -lopenblas -L/usr/lib/gcc/aarch64-linux-gnu/10.3.1 -lgfortran -lm -L/home/biocbuild/R/R-4.4.1/lib -lR installing to /home/biocbuild/tmp/Rtmp5bZNuO/Rinst15c71a538ed56d/00LOCK-cliqueMS/00new/cliqueMS/libs ** R Error in .install_package_code_files(".", instdir) : files in 'Collate' field missing from '/home/biocbuild/tmp/Rtmp5bZNuO/Rbuild15c71a6ce83449/cliqueMS/R': zzz.R ERROR: unable to collate and parse R files for package ‘cliqueMS’ * removing ‘/home/biocbuild/tmp/Rtmp5bZNuO/Rinst15c71a538ed56d/cliqueMS’ ----------------------------------- ERROR: package installation failed