Back to Build/check report for BioC 3.17 |
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This page was generated on 2023-02-08 01:15:28 -0000 (Wed, 08 Feb 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4164 |
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 |
To the developers/maintainers of the SeqSQC package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SeqSQC.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1836/2164 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
SeqSQC 1.21.0 (landing page) Qian Liu
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | TIMEOUT | |||||||||
Package: SeqSQC |
Version: 1.21.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SeqSQC.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings SeqSQC_1.21.0.tar.gz |
StartedAt: 2023-02-07 15:28:45 -0000 (Tue, 07 Feb 2023) |
EndedAt: 2023-02-07 16:08:46 -0000 (Tue, 07 Feb 2023) |
EllapsedTime: 2401.0 seconds |
RetCode: None |
Status: TIMEOUT |
CheckDir: SeqSQC.Rcheck |
Warnings: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:SeqSQC.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings SeqSQC_1.21.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/SeqSQC.Rcheck’ * using R Under development (unstable) (2023-01-14 r83615) * using platform: aarch64-unknown-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 * running under: Ubuntu 22.04.1 LTS * using session charset: UTF-8 * checking for file ‘SeqSQC/DESCRIPTION’ ... OK * this is package ‘SeqSQC’ version ‘1.21.0’ * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘SeqSQC’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... NOTE Problems with news in ‘NEWS’: Cannot process chunk/lines: Load benchmark data from ExperimentHub Cannot process chunk/lines: o added in the R script, will download only once with first time running of the LoadVfile() or sampleQC(). Cannot process chunk/lines: Bioconductor submission check: Cannot process chunk/lines: o Added unit test. Cannot process chunk/lines: o Added a NEWS file to keep track of changes Cannot process chunk/lines: o Added zzz.R to fix the no visible binding for global functions or variables. Cannot process chunk/lines: o Added the "example_sub.vcf" for 1000 lines of variants to run as example in the package vignette. Cannot process chunk/lines: o Added accessor methods for SeqSQCclass data structure to get the slots of "gdsfile" and "QCresult". Cannot process chunk/lines: Vignettes: Cannot process chunk/lines: o Added bioconductor installation and library load section in the vignette. Cannot process chunk/lines: o Added runnable example vcf file added in "inst/extdata/example_sub.vcf", with 1000 lines of variants. Cannot process chunk/lines: MAN: Cannot process chunk/lines: o added package documentation for dataset, class, methods and constructor. * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking files in ‘vignettes’ ... OK * checking examples ...
SeqSQC.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL SeqSQC ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’ * installing *source* package ‘SeqSQC’ ... ** using staged installation ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (SeqSQC)
SeqSQC.Rcheck/SeqSQC-Ex.timings
name | user | system | elapsed | |
IBDCheck | 0.544 | 0.017 | 0.672 | |
IBDRemove | 0.474 | 0.004 | 0.485 | |
Inbreeding | 3.616 | 0.115 | 3.988 | |