VJ Carey
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/erma |
| Branch: RELEASE_3_6 |
| Last Commit: 3d0f5a7 |
| Last Changed Date: 2018-04-03 11:21:49 -0400 (Tue, 03 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:26:28 -0400 (Thu, 12 Apr 2018).
| Package 436/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| erma 0.10.1 VJ Carey
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: erma |
| Version: 0.10.1 |
| Command: rm -rf erma.buildbin-libdir erma.Rcheck && mkdir erma.buildbin-libdir erma.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=erma.buildbin-libdir erma_0.10.1.tar.gz >erma.Rcheck\00install.out 2>&1 && cp erma.Rcheck\00install.out erma-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=erma.buildbin-libdir --install="check:erma-install.out" --force-multiarch --no-vignettes --timings erma_0.10.1.tar.gz |
| StartedAt: 2018-04-11 23:49:49 -0400 (Wed, 11 Apr 2018) |
| EndedAt: 2018-04-11 23:56:58 -0400 (Wed, 11 Apr 2018) |
| EllapsedTime: 429.1 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: erma.Rcheck |
| Warnings: 1 |
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### Running command:
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### rm -rf erma.buildbin-libdir erma.Rcheck && mkdir erma.buildbin-libdir erma.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=erma.buildbin-libdir erma_0.10.1.tar.gz >erma.Rcheck\00install.out 2>&1 && cp erma.Rcheck\00install.out erma-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=erma.buildbin-libdir --install="check:erma-install.out" --force-multiarch --no-vignettes --timings erma_0.10.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/erma.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'erma/DESCRIPTION' ... OK
* this is package 'erma' version '0.10.1'
* 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 'erma' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpuqD1Xa/R.INSTALL2ed05cbd23df/erma/man/genemodel.Rd:41: missing file link 'GRanges'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpuqD1Xa/R.INSTALL2ed05cbd23df/erma/man/mapmeta.Rd:21: missing file link 'DataFrame'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpuqD1Xa/R.INSTALL2ed05cbd23df/erma/man/stateProfile.Rd:38: missing file link 'promoters'
See 'C:/Users/biocbuild/bbs-3.6-bioc/meat/erma.Rcheck/00install.out' for details.
* checking installed package size ... NOTE
installed size is 200.4Mb
sub-directories of 1Mb or more:
bed_tabix 161.4Mb
data 37.1Mb
doc 1.4Mb
* 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
geneTxRange: no visible global function definition for 'select'
geneTxRange: no visible global function definition for 'IRanges'
genemodel: no visible global function definition for 'IRanges'
genemodelOLD: no visible binding for global variable 'exonsBy'
map2range: no visible global function definition for 'IRanges'
mapmeta: no visible global function definition for 'read.csv'
stateProf: no visible global function definition for 'keys'
stateProfile: no visible binding for global variable 'i'
stateProfile: no visible global function definition for 'genome'
stateProfile: no visible global function definition for 'seqlevels<-'
stateProfile: no visible global function definition for 'seqlevels'
stateProfile : <anonymous>: no visible global function definition for
'IRanges'
stateProfile: no visible global function definition for 'data'
stateProfile: no visible binding for global variable 'short_celltype'
stateProfile: no visible binding for global variable 'states_25'
stateProfile: no visible binding for global variable 'name'
statesByRange: no visible binding for global variable 'mod'
statesByRange: no visible binding for global variable 'upstream'
statesByRange: no visible binding for global variable 'downstream'
statesByRange: no visible binding for global variable 'i'
statesByRange: no visible global function definition for 'genome'
statesByRange: no visible global function definition for 'seqlevels<-'
statesByRange: no visible global function definition for 'seqlevels'
statesByRange : <anonymous>: no visible global function definition for
'IRanges'
statesByRange : <anonymous>: no visible binding for global variable
'tss'
statesByRange: no visible global function definition for 'data'
statesByRange: no visible binding for global variable 'short_celltype'
statesByRange: no visible binding for global variable 'states_25'
subsetByRanges : <anonymous>: no visible global function definition for
'genome'
subsetByRanges : <anonymous>: no visible global function definition for
'seqlevels<-'
subsetByRanges : <anonymous>: no visible global function definition for
'seqlevels'
Undefined global functions or variables:
IRanges data downstream exonsBy genome i keys mod name read.csv
select seqlevels seqlevels<- short_celltype states_25 tss upstream
Consider adding
importFrom("utils", "data", "read.csv")
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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
erma-package 9.04 0.28 9.31
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
erma-package 8.82 0.26 9.08
* 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, 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.6-bioc/meat/erma.Rcheck/00check.log'
for details.
erma.Rcheck/00install.out
install for i386
* installing *source* package 'erma' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'erma'
finding HTML links ... done
ErmaSet-class html
finding level-2 HTML links ... done
erma-package html
genemodel html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpuqD1Xa/R.INSTALL2ed05cbd23df/erma/man/genemodel.Rd:41: missing file link 'GRanges'
mapmeta html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpuqD1Xa/R.INSTALL2ed05cbd23df/erma/man/mapmeta.Rd:21: missing file link 'DataFrame'
stateProfile html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpuqD1Xa/R.INSTALL2ed05cbd23df/erma/man/stateProfile.Rd:38: missing file link 'promoters'
states_25 html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'erma' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'erma' as erma_0.10.1.zip
* DONE (erma)
In R CMD INSTALL
In R CMD INSTALL
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erma.Rcheck/examples_i386/erma-Ex.timings
|
erma.Rcheck/examples_x64/erma-Ex.timings
|