flowPhyto 1.18.0
Chris Berthiaume
| Snapshot Date: 2015-02-07 16:20:12 -0800 (Sat, 07 Feb 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_0/madman/Rpacks/flowPhyto | | Last Changed Rev: 95439 / Revision: 99197 | | Last Changed Date: 2014-10-13 14:38:33 -0700 (Mon, 13 Oct 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 |
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### Running command:
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### rm -rf flowPhyto.buildbin-libdir flowPhyto.Rcheck && mkdir flowPhyto.buildbin-libdir flowPhyto.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=flowPhyto.buildbin-libdir flowPhyto_1.18.0.tar.gz >flowPhyto.Rcheck\00install.out 2>&1 && cp flowPhyto.Rcheck\00install.out flowPhyto-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=flowPhyto.buildbin-libdir --install="check:flowPhyto-install.out" --force-multiarch --no-vignettes --timings flowPhyto_1.18.0.tar.gz
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* using log directory 'D:/biocbld/bbs-3.0-bioc/meat/flowPhyto.Rcheck'
* using R version 3.1.2 (2014-10-31)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'flowPhyto/DESCRIPTION' ... OK
* this is package 'flowPhyto' version '1.18.0'
* 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 'flowPhyto' 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 ... NOTE
.DBcon: no visible global function definition for 'dbConnect'
.DBcon: no visible global function definition for 'dbDriver'
.DBcon: no visible binding for global variable '.db.driver'
.DBcon: no visible binding for global variable '.db.user'
.DBcon: no visible binding for global variable '.db.pass'
.DBcon: no visible binding for global variable '.db.name'
.DBcon: no visible binding for global variable '.db.host'
.interpolateSDSLatLon: no visible global function definition for
'na.approx'
.loadSDS: no visible global function definition for 'dbReadTable'
.loadSDS: no visible binding for global variable '.db.cruise.tab.nm'
.loadSDS: no visible global function definition for 'dbGetQuery'
.loadSDS: no visible binding for global variable '.db.sds.tab.nm'
.loadSDS: no visible binding for global variable '.db.cruise.fkey.nm'
.loadSDS: no visible global function definition for 'dbListFields'
.loadSDS: no visible global function definition for 'dbWriteTable'
.loadStats: no visible global function definition for 'dbReadTable'
.loadStats: no visible binding for global variable '.db.cruise.tab.nm'
.loadStats: no visible global function definition for 'dbGetQuery'
.loadStats: no visible binding for global variable '.db.stats.tab.nm'
.loadStats: no visible binding for global variable '.db.cruise.fkey.nm'
.loadStats: no visible global function definition for 'dbListFields'
.loadStats: no visible global function definition for 'dbWriteTable'
.prePlotLevel2: no visible binding for global variable '.SOURCE.DIR'
.queryStats: no visible binding for global variable '.db.stats.tab.nm'
.queryStats: no visible binding for global variable
'.db.cruise.fkey.nm'
.queryStats: no visible binding for global variable '.db.cruise.tab.nm'
classify: no visible binding for global variable 'pe'
classify: no visible binding for global variable 'chl_small'
classify: no visible binding for global variable 'fsc_perp'
classify: no visible binding for global variable 'fsc_small'
classify: no visible binding for global variable 'chl_big'
classify: no visible binding for global variable 'pop'
filter: no visible binding for global variable 'D1'
filter: no visible binding for global variable 'D2'
filter: no visible binding for global variable 'fsc_small'
plotCruiseStats: no visible binding for global variable 'resamp'
plotCytogram: no visible binding for global variable 'pop'
plotLatLongMap: no visible global function definition for
'color.legend'
summarize: no visible binding for global variable 'pop'
summarizeFile: no visible binding for global variable 'pop'
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [108s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
plotCruiseStats 10.26 0.33 10.92
censusFile 4.44 0.15 11.43
pipeline 0.10 0.05 25.04
writeSeaflow 0.06 0.00 30.06
** running examples for arch 'x64' ... [111s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
plotCruiseStats 7.12 0.38 7.83
census 3.04 0.85 5.73
censusFile 3.71 0.13 9.09
writeSeaflow 0.08 0.00 30.08
pipeline 0.05 0.01 29.30
* 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
NOTE: There was 1 note.
See
'D:/biocbld/bbs-3.0-bioc/meat/flowPhyto.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'flowPhyto' ...
** R
** 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 'flowPhyto' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'flowPhyto' as flowPhyto_1.18.0.zip
* DONE (flowPhyto)