Back to Multiple platform build/check report for BioC 3.15 |
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This page was generated on 2022-10-19 13:20:07 -0400 (Wed, 19 Oct 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4386 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" | 4138 |
merida1 | macOS 10.14.6 Mojave | x86_64 | 4.2.1 (2022-06-23) -- "Funny-Looking Kid" | 4205 |
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 coexnet package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/coexnet.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 376/2140 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
coexnet 1.18.0 (landing page) Juan David Henao
| nebbiolo1 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | ERROR | |||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | ERROR | OK | |||||||||
merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | ERROR | OK | |||||||||
Package: coexnet |
Version: 1.18.0 |
Command: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:coexnet.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings coexnet_1.18.0.tar.gz |
StartedAt: 2022-10-18 19:08:23 -0400 (Tue, 18 Oct 2022) |
EndedAt: 2022-10-18 19:11:27 -0400 (Tue, 18 Oct 2022) |
EllapsedTime: 184.1 seconds |
RetCode: 1 |
Status: ERROR |
CheckDir: coexnet.Rcheck |
Warnings: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD check --install=check:coexnet.install-out.txt --library=/home/biocbuild/bbs-3.15-bioc/R/library --no-vignettes --timings coexnet_1.18.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.15-bioc/meat/coexnet.Rcheck’ * using R version 4.2.1 (2022-06-23) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘coexnet/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘coexnet’ version ‘1.18.0’ * 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 ‘coexnet’ 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 LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed findThreshold 11.518 0.212 11.731 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘runTests.R’ ERROR Running the tests in ‘tests/runTests.R’ failed. Last 13 lines of output: FAILURE in test_ppiNet: Error in checkEqualsNumeric(length(ppi), 10) : Mean relative difference: 0.6666667 Test files with failing tests test_coexnet.R test_CCP test_geneSymbol test_ppiNet Error in BiocGenerics:::testPackage("coexnet") : unit tests failed for package coexnet Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 ERROR See ‘/home/biocbuild/bbs-3.15-bioc/meat/coexnet.Rcheck/00check.log’ for details.
coexnet.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD INSTALL coexnet ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.15-bioc/R/library’ * installing *source* package ‘coexnet’ ... ** using staged installation ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (coexnet)
coexnet.Rcheck/tests/runTests.Rout.fail
R version 4.2.1 (2022-06-23) -- "Funny-Looking Kid" Copyright (C) 2022 The R Foundation for Statistical Computing Platform: x86_64-pc-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. > BiocGenerics:::testPackage("coexnet") Setting options('download.file.method.GEOquery'='auto') Setting options('GEOquery.inmemory.gpl'=FALSE) Timing stopped at: 0.011 0 0.011 Error in checkEqualsNumeric(length(ccp), 10) : Mean relative difference: 1 Achieved FDR: 0.0979166666666667Achieved FDR: 0.0463636363636364Timing stopped at: 0.013 0 0.014 Error in checkEquals(final_table$ID[1], "Os03g0669200") : 'is.NA' value mismatch: 0 in current 1 in target Timing stopped at: 0.002 0 0.001 Error in checkEqualsNumeric(length(ppi), 10) : Mean relative difference: 0.6666667 RUNIT TEST PROTOCOL -- Tue Oct 18 19:11:24 2022 *********************************************** Number of test functions: 10 Number of errors: 0 Number of failures: 3 1 Test Suite : coexnet RUnit Tests - 10 test functions, 0 errors, 3 failures FAILURE in test_CCP: Error in checkEqualsNumeric(length(ccp), 10) : Mean relative difference: 1 FAILURE in test_geneSymbol: Error in checkEquals(final_table$ID[1], "Os03g0669200") : 'is.NA' value mismatch: 0 in current 1 in target FAILURE in test_ppiNet: Error in checkEqualsNumeric(length(ppi), 10) : Mean relative difference: 0.6666667 Test files with failing tests test_coexnet.R test_CCP test_geneSymbol test_ppiNet Error in BiocGenerics:::testPackage("coexnet") : unit tests failed for package coexnet Execution halted
coexnet.Rcheck/coexnet-Ex.timings
name | user | system | elapsed | |
CCP | 0.041 | 0.003 | 0.045 | |
cofVar | 0.019 | 0.008 | 0.027 | |
createNet | 0.648 | 0.008 | 0.657 | |
difExprs | 0.701 | 0.032 | 0.733 | |
exprMat | 0 | 0 | 0 | |
findThreshold | 11.518 | 0.212 | 11.731 | |
geneSymbol | 0.016 | 0.000 | 0.017 | |
getAffy | 0.317 | 0.004 | 0.322 | |
getInfo | 0.001 | 0.000 | 0.000 | |
ppiNet | 0.005 | 0.000 | 0.004 | |
sharedComponents | 0.005 | 0.000 | 0.004 | |