Back to Multiple platform build/check report for BioC 3.10 |
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This page was generated on 2020-04-15 12:28:18 -0400 (Wed, 15 Apr 2020).
Package 686/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
GenomicScores 1.10.0 Robert Castelo
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | |||||||
tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | |||||||
merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: GenomicScores |
Version: 1.10.0 |
Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GenomicScores.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings GenomicScores_1.10.0.tar.gz |
StartedAt: 2020-04-15 03:27:21 -0400 (Wed, 15 Apr 2020) |
EndedAt: 2020-04-15 03:33:22 -0400 (Wed, 15 Apr 2020) |
EllapsedTime: 361.2 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: GenomicScores.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GenomicScores.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings GenomicScores_1.10.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/GenomicScores.Rcheck' * using R version 3.6.3 (2020-02-29) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'GenomicScores/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'GenomicScores' version '1.10.0' * 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: inst/gscores-template/inst/extdata/.gitkeep These were most likely included in error. See section 'Package structure' in the 'Writing R Extensions' manual. * checking for portable file names ... OK * checking whether package 'GenomicScores' can be installed ... WARNING Found the following significant warnings: Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpAftMlf/R.INSTALL20fc11c36855/GenomicScores/man/GScores-class.Rd:241: file link 'phastCons100way.UCSC.hg19' in package 'phastCons100way.UCSC.hg19' does not exist and so has been treated as a topic Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpAftMlf/R.INSTALL20fc11c36855/GenomicScores/man/gscores.Rd:113: file link 'phastCons100way.UCSC.hg19' in package 'phastCons100way.UCSC.hg19' does not exist and so has been treated as a topic Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpAftMlf/R.INSTALL20fc11c36855/GenomicScores/man/gscores.Rd:114: file link 'MafDb.1Kgenomes.phase1.hs37d5' in package 'MafDb.1Kgenomes.phase1.hs37d5' does not exist and so has been treated as a topic See 'C:/Users/biocbuild/bbs-3.10-bioc/meat/GenomicScores.Rcheck/00install.out' for details. * 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 * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 ... ** running examples for arch 'i386' ... OK Examples with CPU or elapsed time > 5s user system elapsed gscores 11.75 1.47 13.57 GScores-class 8.19 0.61 14.25 ** running examples for arch 'x64' ... OK Examples with CPU or elapsed time > 5s user system elapsed gscores 10.59 1.02 11.87 GScores-class 8.30 0.51 10.63 * 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 WARNING, 1 NOTE See 'C:/Users/biocbuild/bbs-3.10-bioc/meat/GenomicScores.Rcheck/00check.log' for details.
GenomicScores.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/GenomicScores_1.10.0.tar.gz && rm -rf GenomicScores.buildbin-libdir && mkdir GenomicScores.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GenomicScores.buildbin-libdir GenomicScores_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL GenomicScores_1.10.0.zip && rm GenomicScores_1.10.0.tar.gz GenomicScores_1.10.0.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 1745k 100 1745k 0 0 16.1M 0 --:--:-- --:--:-- --:--:-- 16.7M install for i386 * installing *source* package 'GenomicScores' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'GenomicScores' finding HTML links ... done GScores-class html finding level-2 HTML links ... done Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpAftMlf/R.INSTALL20fc11c36855/GenomicScores/man/GScores-class.Rd:241: file link 'phastCons100way.UCSC.hg19' in package 'phastCons100way.UCSC.hg19' does not exist and so has been treated as a topic GenomicScores-defunct html GenomicScores-deprecated html gscores html Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpAftMlf/R.INSTALL20fc11c36855/GenomicScores/man/gscores.Rd:113: file link 'phastCons100way.UCSC.hg19' in package 'phastCons100way.UCSC.hg19' does not exist and so has been treated as a topic Rd warning: C:/Users/biocbuild/bbs-3.10-bioc/tmpdir/RtmpAftMlf/R.INSTALL20fc11c36855/GenomicScores/man/gscores.Rd:114: file link 'MafDb.1Kgenomes.phase1.hs37d5' in package 'MafDb.1Kgenomes.phase1.hs37d5' does not exist and so has been treated as a topic ** 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 install for x64 * installing *source* package 'GenomicScores' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'GenomicScores' as GenomicScores_1.10.0.zip * DONE (GenomicScores) * installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library' package 'GenomicScores' successfully unpacked and MD5 sums checked
GenomicScores.Rcheck/examples_i386/GenomicScores-Ex.timings
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GenomicScores.Rcheck/examples_x64/GenomicScores-Ex.timings
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