Back to Build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-03-01 07:38:38 -0000 (Wed, 01 Mar 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" | 4266 |
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 consensusSeekeR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/consensusSeekeR.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 399/2171 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
consensusSeekeR 1.27.0 (landing page) Astrid Deschenes
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
Package: consensusSeekeR |
Version: 1.27.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:consensusSeekeR.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings consensusSeekeR_1.27.0.tar.gz |
StartedAt: 2023-02-28 00:19:53 -0000 (Tue, 28 Feb 2023) |
EndedAt: 2023-02-28 00:26:40 -0000 (Tue, 28 Feb 2023) |
EllapsedTime: 406.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: consensusSeekeR.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:consensusSeekeR.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings consensusSeekeR_1.27.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/consensusSeekeR.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 ‘consensusSeekeR/DESCRIPTION’ ... OK * this is package ‘consensusSeekeR’ version ‘1.27.0’ * 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 ‘consensusSeekeR’ 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 ... OK * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... ‘consensusSeekeR.Rmd’ using ‘UTF-8’... OK NONE * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: OK
consensusSeekeR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL consensusSeekeR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/library’ * installing *source* package ‘consensusSeekeR’ ... ** using staged installation ** 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 * DONE (consensusSeekeR)
consensusSeekeR.Rcheck/tests/runTests.Rout
R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" Copyright (C) 2023 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > ## Run all tests present in the package > BiocGenerics:::testPackage("consensusSeekeR") Attaching package: 'BiocGenerics' The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which.max, which.min Attaching package: 'S4Vectors' The following objects are masked from 'package:base': I, expand.grid, unname RUNIT TEST PROTOCOL -- Tue Feb 28 00:24:13 2023 *********************************************** Number of test functions: 56 Number of errors: 0 Number of failures: 0 1 Test Suite : consensusSeekeR RUnit Tests - 56 test functions, 0 errors, 0 failures Number of test functions: 56 Number of errors: 0 Number of failures: 0 > > proc.time() user system elapsed 18.811 0.485 19.286
consensusSeekeR.Rcheck/consensusSeekeR-Ex.timings
name | user | system | elapsed | |
A549_CTCF_MYJ_NarrowPeaks_partial | 0.973 | 0.120 | 1.093 | |
A549_CTCF_MYJ_Peaks_partial | 0.449 | 0.084 | 0.533 | |
A549_CTCF_MYN_NarrowPeaks_partial | 0.428 | 0.040 | 0.468 | |
A549_CTCF_MYN_Peaks_partial | 0.502 | 0.064 | 0.566 | |
A549_FOSL2_01_NarrowPeaks_partial | 0.373 | 0.116 | 0.489 | |
A549_FOSL2_01_Peaks_partial | 0.501 | 0.016 | 0.518 | |
A549_FOXA1_01_NarrowPeaks_partial | 0.471 | 0.004 | 0.475 | |
A549_FOXA1_01_Peaks_partial | 0.687 | 0.024 | 0.711 | |
A549_NR3C1_CFQ_NarrowPeaks_partial | 0.434 | 0.036 | 0.470 | |
A549_NR3C1_CFQ_Peaks_partial | 0.527 | 0.028 | 0.555 | |
A549_NR3C1_CFR_NarrowPeaks_partial | 0.434 | 0.027 | 0.461 | |
A549_NR3C1_CFR_Peaks_partial | 0.431 | 0.004 | 0.435 | |
A549_NR3C1_CFS_NarrowPeaks_partial | 1.073 | 0.032 | 1.105 | |
A549_NR3C1_CFS_Peaks_partial | 1.065 | 0.032 | 1.097 | |
NOrMAL_nucleosome_positions | 0.841 | 0.024 | 0.865 | |
NOrMAL_nucleosome_ranges | 0.828 | 0.024 | 0.852 | |
NucPosSimulator_nucleosome_positions | 0.819 | 0.024 | 0.843 | |
NucPosSimulator_nucleosome_ranges | 0.785 | 0.020 | 0.805 | |
PING_nucleosome_positions | 0.514 | 0.028 | 0.543 | |
PING_nucleosome_ranges | 0.458 | 0.000 | 0.458 | |
findConsensusPeakRegions | 0.937 | 0.048 | 0.985 | |
findConsensusPeakRegionsValidation | 0.101 | 0.008 | 0.109 | |
readNarrowPeakFile | 0.111 | 0.004 | 0.116 | |