Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-05-30 12:48:23 -0400 (Thu, 30 May 2019).
Package 252/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
ChIC 1.4.0 Carmen Maria Livi
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | ...NOT SUPPORTED... | ||||||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: ChIC |
Version: 1.4.0 |
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:ChIC.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings ChIC_1.4.0.tar.gz |
StartedAt: 2019-05-30 00:08:57 -0400 (Thu, 30 May 2019) |
EndedAt: 2019-05-30 00:10:48 -0400 (Thu, 30 May 2019) |
EllapsedTime: 110.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: ChIC.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:ChIC.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings ChIC_1.4.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/ChIC.Rcheck’ * using R version 3.6.0 (2019-04-26) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘ChIC/DESCRIPTION’ ... OK * this is package ‘ChIC’ version ‘1.4.0’ * 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 ... NOTE Found the following hidden files and directories: .BBSoptions These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘ChIC’ 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 ... NOTE f_annotationLoad: no visible binding for global variable ‘hg19_refseq_genes_filtered_granges’ f_annotationLoad: no visible binding for global variable ‘mm9_refseq_genes_filtered_granges’ f_annotationLoad: no visible binding for global variable ‘dm3_refseq_genes_filtered_granges’ f_chromInfoLoad: no visible binding for global variable ‘hg19_chrom_info’ f_chromInfoLoad: no visible binding for global variable ‘mm9_chrom_info’ f_chromInfoLoad: no visible binding for global variable ‘dm3_chrom_info’ f_getPredictionModel: no visible binding for global variable ‘rf_models’ f_loadDataCompendium: no visible binding for global variable ‘compendium_profiles’ f_loadDataCompendium: no visible binding for global variable ‘compendium_profiles_TF’ f_metaGeneDefinition: no visible binding for global variable ‘classesDefList’ plotReferenceDistribution: no visible binding for global variable ‘compendium_db_tf’ plotReferenceDistribution: no visible binding for global variable ‘compendium_db’ Undefined global functions or variables: classesDefList compendium_db compendium_db_tf compendium_profiles compendium_profiles_TF dm3_chrom_info dm3_refseq_genes_filtered_granges hg19_chrom_info hg19_refseq_genes_filtered_granges mm9_chrom_info mm9_refseq_genes_filtered_granges rf_models * 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 ... 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: 2 NOTEs See ‘/home/biocbuild/bbs-3.9-bioc/meat/ChIC.Rcheck/00check.log’ for details.
ChIC.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL ChIC ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘ChIC’ ... ** using staged installation ** R ** 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 (ChIC)
ChIC.Rcheck/ChIC-Ex.timings
name | user | system | elapsed | |
createMetageneProfile | 0.000 | 0.000 | 0.001 | |
getCrossCorrelationScores | 0 | 0 | 0 | |
getPeakCallingScores | 0.001 | 0.000 | 0.001 | |
listAvailableElements | 0.007 | 0.000 | 0.008 | |
listDatasets | 0.100 | 0.012 | 0.134 | |
metagenePlotsForComparison | 0 | 0 | 0 | |
plotReferenceDistribution | 0.000 | 0.001 | 0.000 | |
predictionScore | 0 | 0 | 0 | |
qualityScores_EM | 0 | 0 | 0 | |
qualityScores_GM | 0.000 | 0.001 | 0.000 | |
qualityScores_LM | 0.000 | 0.000 | 0.001 | |
qualityScores_LMgenebody | 0 | 0 | 0 | |
readBamFile | 0 | 0 | 0 | |
removeLocalTagAnomalies | 0.000 | 0.000 | 0.001 | |
tagDensity | 0 | 0 | 0 | |