Back to Multiple platform build/check report for BioC 3.13 |
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This page was generated on 2021-10-15 15:05:55 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the transcriptogramer package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/transcriptogramer.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1946/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
transcriptogramer 1.14.0 (landing page) Diego Morais
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: transcriptogramer |
Version: 1.14.0 |
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:transcriptogramer.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings transcriptogramer_1.14.0.tar.gz |
StartedAt: 2021-10-14 11:55:14 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 11:59:30 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 256.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: transcriptogramer.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:transcriptogramer.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings transcriptogramer_1.14.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/transcriptogramer.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘transcriptogramer/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘transcriptogramer’ version ‘1.14.0’ * 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 ‘transcriptogramer’ can be installed ... OK * checking installed package size ... NOTE installed size is 5.5Mb sub-directories of 1Mb or more: data 5.0Mb * 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 * 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 ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/home/biocbuild/bbs-3.13-bioc/meat/transcriptogramer.Rcheck/00check.log’ for details.
transcriptogramer.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL transcriptogramer ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’ * installing *source* package ‘transcriptogramer’ ... ** 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 (transcriptogramer)
transcriptogramer.Rcheck/tests/runTests.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 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("transcriptogramer") preprocessing input data... step 1 of 1 calculating node properties... step 1 of 2 ** this may take some time... applying sliding window and mounting resulting data... step 2 of 2 ** this may take some time... done! mapping identifiers to ENSEMBL Peptide ID... step 1 of 2 averaging over all identifiers related to the same protein... step 2 of 2 done! applying sliding window and mounting resulting data... step 1 of 1 done! RUNIT TEST PROTOCOL -- Thu Oct 14 11:59:26 2021 *********************************************** Number of test functions: 3 Number of errors: 0 Number of failures: 0 1 Test Suite : transcriptogramer RUnit Tests - 3 test functions, 0 errors, 0 failures Number of test functions: 3 Number of errors: 0 Number of failures: 0 > > proc.time() user system elapsed 11.216 1.126 113.058
transcriptogramer.Rcheck/transcriptogramer-Ex.timings
name | user | system | elapsed | |
DE-method | 1.241 | 0.060 | 1.302 | |
DEsymbols | 0.117 | 0.256 | 0.373 | |
GPL570 | 0.420 | 0.716 | 1.136 | |
GSE9988 | 0.392 | 0.816 | 1.208 | |
Hs700 | 0.051 | 0.196 | 0.246 | |
Hs800 | 0.063 | 0.135 | 0.198 | |
Hs900 | 0.026 | 0.140 | 0.166 | |
HsBPTerms | 0.511 | 0.900 | 1.411 | |
Mm700 | 0.061 | 0.203 | 0.264 | |
Mm800 | 0.080 | 0.136 | 0.216 | |
Mm900 | 0.037 | 0.140 | 0.176 | |
Rn700 | 0.048 | 0.228 | 0.276 | |
Rn800 | 0.036 | 0.180 | 0.217 | |
Rn900 | 0.050 | 0.119 | 0.170 | |
Sc700 | 0.016 | 0.056 | 0.072 | |
Sc800 | 0.008 | 0.060 | 0.068 | |
Sc900 | 0.021 | 0.039 | 0.060 | |
Terms-method | 0.057 | 0.009 | 0.066 | |
association | 0.625 | 0.979 | 1.604 | |
clusterEnrichment-method | 0.028 | 0.001 | 0.029 | |
clusterVisualization-method | 0.038 | 0.014 | 0.053 | |
connectivityProperties-method | 0.037 | 0.004 | 0.041 | |
differentiallyExpressed-method | 0.047 | 0.008 | 0.054 | |
enrichmentPlot-method | 0.027 | 0.000 | 0.027 | |
orderingProperties-method | 0.043 | 0.000 | 0.043 | |
radius-method | 0.027 | 0.000 | 0.027 | |
transcriptogramPreprocess | 0.093 | 0.000 | 0.093 | |
transcriptogramStep1-method | 0.030 | 0.003 | 0.032 | |
transcriptogramStep2-method | 0.020 | 0.016 | 0.037 | |