Alejandra Gonzalez-Beltran
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/Risa |
| Branch: RELEASE_3_10 |
| Last Commit: 4432469 |
| Last Changed Date: 2019-10-29 13:08:34 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:20:58 -0400 (Wed, 15 Apr 2020).
| Package 1439/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| Risa 1.28.0 Alejandra Gonzalez-Beltran
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: Risa |
| Version: 1.28.0 |
| Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Risa.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings Risa_1.28.0.tar.gz |
| StartedAt: 2020-04-15 06:07:50 -0400 (Wed, 15 Apr 2020) |
| EndedAt: 2020-04-15 06:13:13 -0400 (Wed, 15 Apr 2020) |
| EllapsedTime: 322.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: Risa.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:Risa.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings Risa_1.28.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/Risa.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 'Risa/DESCRIPTION' ... OK
* this is package 'Risa' version '1.28.0'
* 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 whether package 'Risa' 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
* 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 ... NOTE
getPackagesInBiocView: no visible global function definition for 'data'
readISAtabZip: no visible global function definition for 'unzip'
suggestBiocPackage: no visible global function definition for
'read.csv'
write.assay.file: no visible global function definition for
'write.table'
write.investigation.file: no visible global function definition for
'write.table'
write.study.file: no visible global function definition for
'write.table'
initialize,ISATab: no visible global function definition for
'count.fields'
initialize,ISATab: no visible global function definition for
'read.table'
initialize,ISATab : <anonymous>: no visible global function definition
for 'read.table'
initialize,ISATab : <anonymous> : <anonymous>: no visible global
function definition for 'read.table'
initialize,ISATab: no visible global function definition for 'na.omit'
Undefined global functions or variables:
count.fields data na.omit read.csv read.table unzip write.table
Consider adding
importFrom("stats", "na.omit")
importFrom("utils", "count.fields", "data", "read.csv", "read.table",
"unzip", "write.table")
to your NAMESPACE file.
* 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
processAssayXcmsSet.1factor 1.04 0.02 26.73
processAssayXcmsSet 0.69 0.00 24.13
Risa-package 0.43 0.16 6.37
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
processAssayXcmsSet.1factor 1.19 0.03 27.92
processAssayXcmsSet 0.73 0.03 25.13
* 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
'C:/Users/biocbuild/bbs-3.10-bioc/meat/Risa.Rcheck/00check.log'
for details.
Risa.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/Risa_1.28.0.tar.gz && rm -rf Risa.buildbin-libdir && mkdir Risa.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=Risa.buildbin-libdir Risa_1.28.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL Risa_1.28.0.zip && rm Risa_1.28.0.tar.gz Risa_1.28.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
0 2203k 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 2203k 100 2203k 0 0 6644k 0 --:--:-- --:--:-- --:--:-- 6698k
install for i386
* installing *source* package 'Risa' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'Risa'
finding HTML links ... done
AssayTab-class html
ISAtab-class html
Risa-package html
getAnnotatedDataFrameAssay html
getAssayRawDataFilenames-methods html
getExpressionSet html
getMIAMEMetadata html
getMSAssayFilenames html
getMicroarrayAssayFilenames html
getRawDataFilenames-methods html
getStudyFilename html
isMSAssay html
isMicroarrayAssay html
processAssayXcmsSet.1factor html
processAssayXcmsSet html
readISAtab html
suggestBiocPackage html
updateAssayMetadata html
write.assay.file html
write.investigation.file html
write.isatab html
write.study.file html
** 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 'Risa' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Risa' as Risa_1.28.0.zip
* DONE (Risa)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'Risa' successfully unpacked and MD5 sums checked
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Risa.Rcheck/examples_i386/Risa-Ex.timings
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Risa.Rcheck/examples_x64/Risa-Ex.timings
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