Valentin Dinu
| Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019) |
| URL: https://git.bioconductor.org/packages/PoTRA |
| Branch: master |
| Last Commit: aa5b254 |
| Last Changed Date: 2019-04-08 16:42:41 -0400 (Mon, 08 Apr 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-04-09 13:39:27 -0400 (Tue, 09 Apr 2019).
| Package 1209/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| PoTRA 0.99.83 Valentin Dinu
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ WARNINGS ] | OK |
| Package: PoTRA |
| Version: 0.99.83 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:PoTRA.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings PoTRA_0.99.83.tar.gz |
| StartedAt: 2019-04-09 02:56:45 -0400 (Tue, 09 Apr 2019) |
| EndedAt: 2019-04-09 02:58:13 -0400 (Tue, 09 Apr 2019) |
| EllapsedTime: 88.0 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: PoTRA.Rcheck |
| Warnings: 4 |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:PoTRA.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings PoTRA_0.99.83.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/PoTRA.Rcheck’
* using R Under development (unstable) (2018-11-27 r75683)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PoTRA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘PoTRA’ version ‘0.99.83’
* package encoding: UTF-8
* checking package namespace information ... NOTE
Namespaces with empty importFrom:
‘BiocGenerics’ ‘graph’ ‘org.Hs.eg.db’
* 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 ‘PoTRA’ can be installed ... WARNING
Found the following significant warnings:
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:12: unexpected UNKNOWN '\arguements'
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:25: unknown macro '\item'
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:26: unknown macro '\item'
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:27: unknown macro '\item'
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:28: unknown macro '\item'
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:13: All text must be in a section
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:14: All text must be in a section
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:15: All text must be in a section
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:16: All text must be in a section
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:17: All text must be in a section
Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:18: All text must be in a section
See ‘/Users/biocbuild/bbs-3.9-bioc/meat/PoTRA.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
* 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 ... WARNING
prepare_Rd: man/man.Rd:12: unexpected UNKNOWN '\arguements'
prepare_Rd: man/man.Rd:25: unknown macro '\item'
prepare_Rd: man/man.Rd:26: unknown macro '\item'
prepare_Rd: man/man.Rd:27: unknown macro '\item'
prepare_Rd: man/man.Rd:28: unknown macro '\item'
prepare_Rd: man.Rd:13: All text must be in a section
prepare_Rd: man.Rd:14: All text must be in a section
prepare_Rd: man.Rd:15: All text must be in a section
prepare_Rd: man.Rd:16: All text must be in a section
prepare_Rd: man.Rd:17: All text must be in a section
prepare_Rd: man.Rd:18: All text must be in a section
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
‘PoTRA.corN’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... WARNING
Assignments in \usage in documentation object 'PoTRA':
Results <- PoTRA.corN(mydata = mydata, genelist = genelist, Num.sample.normal = Num.sample.normal,
Num.sample.case = Num.sample.case, Pathway.database = Pathway.database,
PR.quantile = PR.quantile)
Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... NONE
* 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: 4 WARNINGs, 1 NOTE
See
‘/Users/biocbuild/bbs-3.9-bioc/meat/PoTRA.Rcheck/00check.log’
for details.
PoTRA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL PoTRA ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘PoTRA’ ... ** R ** inst ** byte-compile and prepare package for lazy loading ** help Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:12: unexpected UNKNOWN '\arguements' Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:25: unknown macro '\item' Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:26: unknown macro '\item' Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:27: unknown macro '\item' Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:28: unknown macro '\item' Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:13: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:13: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:14: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:14: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:15: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:15: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:16: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:16: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:17: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:17: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:18: All text must be in a section Warning: /Users/biocbuild/bbs-3.9-bioc/meat/PoTRA/man/man.Rd:18: All text must be in a section *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (PoTRA)