David Coffey
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/LymphoSeq |
| Branch: RELEASE_3_9 |
| Last Commit: ba3e8d5 |
| Last Changed Date: 2019-05-02 11:54:01 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:35:42 -0400 (Wed, 16 Oct 2019).
| Package 895/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| LymphoSeq 1.12.0 David Coffey
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: LymphoSeq |
| Version: 1.12.0 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:LymphoSeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings LymphoSeq_1.12.0.tar.gz |
| StartedAt: 2019-10-16 04:51:45 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 04:57:35 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 349.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: LymphoSeq.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:LymphoSeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings LymphoSeq_1.12.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/LymphoSeq.Rcheck'
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'LymphoSeq/DESCRIPTION' ... OK
* this is package 'LymphoSeq' version '1.12.0'
* 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 'LymphoSeq' can be installed ... OK
* checking installed package size ... NOTE
installed size is 5.9Mb
sub-directories of 1Mb or more:
extdata 5.5Mb
* 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
cloneTrack 25.03 4.25 30.37
productiveSeq 18.12 0.82 18.94
phyloTree 8.73 0.00 8.73
differentialAbundance 4.80 0.92 5.72
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
cloneTrack 31.88 1.42 33.91
productiveSeq 24.48 0.99 25.53
phyloTree 6.08 0.00 6.08
* 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 NOTE
See
'C:/Users/biocbuild/bbs-3.9-bioc/meat/LymphoSeq.Rcheck/00check.log'
for details.
LymphoSeq.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/LymphoSeq_1.12.0.tar.gz && rm -rf LymphoSeq.buildbin-libdir && mkdir LymphoSeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=LymphoSeq.buildbin-libdir LymphoSeq_1.12.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL LymphoSeq_1.12.0.zip && rm LymphoSeq_1.12.0.tar.gz LymphoSeq_1.12.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 710k 100 710k 0 0 10.5M 0 --:--:-- --:--:-- --:--:-- 11.7M
install for i386
* installing *source* package 'LymphoSeq' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'LymphoSeq'
finding HTML links ... done
alignSeq html
bhattacharyyaCoefficient html
bhattacharyyaMatrix html
chordDiagramVDJ html
clonalRelatedness html
clonality html
cloneTrack html
commonSeqs html
commonSeqsBar html
commonSeqsPlot html
commonSeqsVenn html
differentialAbundance html
exportFasta html
geneFreq html
lorenzCurve html
mergeFiles html
pairwisePlot html
phyloTree html
productive html
productiveSeq html
readImmunoSeq html
removeSeq html
searchPublished html
searchSeq html
seqMatrix html
similarityMatrix html
similarityScore html
topFreq html
topSeqs html
topSeqsPlot html
uniqueSeqs 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 'LymphoSeq' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'LymphoSeq' as LymphoSeq_1.12.0.zip
* DONE (LymphoSeq)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'LymphoSeq' successfully unpacked and MD5 sums checked
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LymphoSeq.Rcheck/examples_i386/LymphoSeq-Ex.timings
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LymphoSeq.Rcheck/examples_x64/LymphoSeq-Ex.timings
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