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BioC 3.0: CHECK report for polyester on moscato1

This page was generated on 2015-04-10 09:51:17 -0700 (Fri, 10 Apr 2015).

Package 673/933HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
polyester 1.0.2
Alyssa Frazee , Jeff Leek
Snapshot Date: 2015-04-09 16:20:12 -0700 (Thu, 09 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/polyester
Last Changed Rev: 96808 / Revision: 102249
Last Changed Date: 2014-11-16 18:27:45 -0800 (Sun, 16 Nov 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ OK ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
oaxaca Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK 

Summary

Package: polyester
Version: 1.0.2
Command: rm -rf polyester.buildbin-libdir polyester.Rcheck && mkdir polyester.buildbin-libdir polyester.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=polyester.buildbin-libdir polyester_1.0.2.tar.gz >polyester.Rcheck\00install.out 2>&1 && cp polyester.Rcheck\00install.out polyester-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=polyester.buildbin-libdir --install="check:polyester-install.out" --force-multiarch --no-vignettes --timings polyester_1.0.2.tar.gz
StartedAt: 2015-04-10 04:17:11 -0700 (Fri, 10 Apr 2015)
EndedAt: 2015-04-10 04:20:50 -0700 (Fri, 10 Apr 2015)
EllapsedTime: 219.0 seconds
RetCode: 0
Status:  OK  
CheckDir: polyester.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf polyester.buildbin-libdir polyester.Rcheck && mkdir polyester.buildbin-libdir polyester.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=polyester.buildbin-libdir polyester_1.0.2.tar.gz >polyester.Rcheck\00install.out 2>&1 && cp polyester.Rcheck\00install.out polyester-install.out  && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=polyester.buildbin-libdir --install="check:polyester-install.out" --force-multiarch --no-vignettes --timings polyester_1.0.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/polyester.Rcheck'
* using R version 3.1.3 (2015-03-09)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'polyester/DESCRIPTION' ... OK
* this is package 'polyester' version '1.0.2'
* 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 'polyester' 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
** checking loading without being on the library search path ... 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 loading without being on the library search path ... 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 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' ... [32s] OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
create_read_numbers 9.31   0.20    9.66
seq_gtf             7.36   0.05   12.78
** running examples for arch 'x64' ... [34s] OK
Examples with CPU or elapsed time > 5s
                    user system elapsed
create_read_numbers 9.81   0.23   10.04
seq_gtf             8.56   0.01   13.87
* 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

polyester.Rcheck/00install.out:


install for i386

* installing *source* package 'polyester' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'polyester' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'polyester' as polyester_1.0.2.zip
* DONE (polyester)

polyester.Rcheck/examples_i386/polyester-Ex.timings:

nameusersystemelapsed
NB000
add_error0.300.020.35
count_transcripts0.040.000.03
create_read_numbers9.310.209.66
fpkm_to_counts0.10.00.1
generate_fragments0.290.030.33
getAttributeField2.270.003.15
get_params0.090.000.09
get_reads0.310.020.33
reverse_complement0.350.060.40
seq_gtf 7.36 0.0512.78
simulate_experiment000
simulate_experiment_countmat000
write_reads0.190.010.28

polyester.Rcheck/examples_x64/polyester-Ex.timings:

nameusersystemelapsed
NB000
add_error0.330.050.37
count_transcripts0.030.000.03
create_read_numbers 9.81 0.2310.04
fpkm_to_counts0.080.020.10
generate_fragments0.320.010.34
getAttributeField2.670.002.67
get_params0.100.000.09
get_reads0.260.000.27
reverse_complement0.250.020.26
seq_gtf 8.56 0.0113.87
simulate_experiment000
simulate_experiment_countmat000
write_reads0.190.020.71