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BioC experimental data: CHECK report for hgu2beta7 on moscato1

This page was generated on 2015-08-22 17:44:01 -0700 (Sat, 22 Aug 2015).

Package 123/246HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
hgu2beta7 1.9.0
Bioconductor Package Maintainer
Snapshot Date: 2015-08-22 06:15:25 -0700 (Sat, 22 Aug 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/hgu2beta7
Last Changed Rev: 3281 / Revision: 3391
Last Changed Date: 2015-04-16 13:20:43 -0700 (Thu, 16 Apr 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  WARNINGS UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ WARNINGS ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  WARNINGS  OK 

Summary

Package: hgu2beta7
Version: 1.9.0
Command: rm -rf hgu2beta7.buildbin-libdir hgu2beta7.Rcheck && mkdir hgu2beta7.buildbin-libdir hgu2beta7.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=hgu2beta7.buildbin-libdir hgu2beta7_1.9.0.tar.gz >hgu2beta7.Rcheck\00install.out 2>&1 && cp hgu2beta7.Rcheck\00install.out hgu2beta7-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=hgu2beta7.buildbin-libdir --install="check:hgu2beta7-install.out" --force-multiarch --no-vignettes --timings hgu2beta7_1.9.0.tar.gz
StartedAt: 2015-08-22 12:18:00 -0700 (Sat, 22 Aug 2015)
EndedAt: 2015-08-22 12:20:37 -0700 (Sat, 22 Aug 2015)
EllapsedTime: 157.0 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: hgu2beta7.Rcheck
Warnings: 3

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf hgu2beta7.buildbin-libdir hgu2beta7.Rcheck && mkdir hgu2beta7.buildbin-libdir hgu2beta7.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=hgu2beta7.buildbin-libdir hgu2beta7_1.9.0.tar.gz >hgu2beta7.Rcheck\00install.out 2>&1 && cp hgu2beta7.Rcheck\00install.out hgu2beta7-install.out  && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=hgu2beta7.buildbin-libdir --install="check:hgu2beta7-install.out" --force-multiarch --no-vignettes --timings hgu2beta7_1.9.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'D:/biocbld/bbs-3.2-data-experiment/meat/hgu2beta7.Rcheck'
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'hgu2beta7/DESCRIPTION' ... OK
* this is package 'hgu2beta7' version '1.9.0'
* 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 'hgu2beta7' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  7.0Mb
  sub-directories of 1Mb or more:
    data   6.9Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... WARNING
Subdirectory 'data' contains no data sets.
* 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 ... NOTE
hgu2beta7: no visible binding for global variable 'hgu2beta7QC'
* 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 ... WARNING
'library' or 'require' call not declared from: 'annotate'
* checking contents of 'data' directory ... WARNING
Files not of a type allowed in a 'data' directory:
  'Rdata.rdb' 'Rdata.rds' 'Rdata.rdx'
Please use e.g. 'inst/extdata' for non-R data files
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ...
** running examples for arch 'i386' ... [7s] OK
** running examples for arch 'x64' ... [7s] OK
* checking PDF version of manual ... OK
* DONE

Status: 3 WARNINGs, 3 NOTEs
See
  'D:/biocbld/bbs-3.2-data-experiment/meat/hgu2beta7.Rcheck/00check.log'
for details.


hgu2beta7.Rcheck/00install.out:


install for i386

* installing *source* package 'hgu2beta7' ...
** R
** data
*** moving datasets to lazyload DB
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded

install for x64

* installing *source* package 'hgu2beta7' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'hgu2beta7' as hgu2beta7_1.9.0.zip
* DONE (hgu2beta7)

hgu2beta7.Rcheck/examples_i386/hgu2beta7-Ex.timings:

nameusersystemelapsed
hgu2beta7ACCNUM0.400.010.42
hgu2beta7CHR0.190.000.19
hgu2beta7CHRLENGTHS000
hgu2beta7CHRLOC0.280.000.28
hgu2beta7ENZYME0.150.000.15
hgu2beta7ENZYME2PROBE0.020.000.02
hgu2beta7GENENAME0.110.000.11
hgu2beta7GO0.920.020.93
hgu2beta7GO2ALLPROBES0.310.000.31
hgu2beta7GO2PROBE0.080.010.10
hgu2beta7GRIF0.270.000.27
hgu2beta7LOCUSID0.130.020.14
hgu2beta7MAP0.150.000.16
hgu2beta7OMIM0.160.000.16
hgu2beta7ORGANISM000
hgu2beta7PATH0.160.000.16
hgu2beta7PATH2PROBE0.220.000.22
hgu2beta7PMID0.230.000.23
hgu2beta7PMID2PROBE0.920.010.94
hgu2beta7REFSEQ0.540.000.55
hgu2beta7SUMFUNC0.350.000.34
hgu2beta7SYMBOL0.260.000.27
hgu2beta7UNIGENE0.240.020.25

hgu2beta7.Rcheck/examples_x64/hgu2beta7-Ex.timings:

nameusersystemelapsed
hgu2beta7ACCNUM0.300.010.31
hgu2beta7CHR0.160.000.16
hgu2beta7CHRLENGTHS000
hgu2beta7CHRLOC0.260.000.26
hgu2beta7ENZYME0.140.020.16
hgu2beta7ENZYME2PROBE000
hgu2beta7GENENAME0.230.000.23
hgu2beta7GO1.090.051.14
hgu2beta7GO2ALLPROBES0.240.000.23
hgu2beta7GO2PROBE0.060.000.07
hgu2beta7GRIF0.290.010.31
hgu2beta7LOCUSID0.170.000.17
hgu2beta7MAP0.180.000.18
hgu2beta7OMIM0.20.00.2
hgu2beta7ORGANISM000
hgu2beta7PATH0.170.000.17
hgu2beta7PATH2PROBE000
hgu2beta7PMID0.610.030.64
hgu2beta7PMID2PROBE1.030.021.05
hgu2beta7REFSEQ0.220.010.23
hgu2beta7SUMFUNC0.230.000.23
hgu2beta7SYMBOL0.270.000.27
hgu2beta7UNIGENE0.260.020.28