RMassBank 1.12.1
RMassBank at Eawag
| Snapshot Date: 2016-04-22 16:20:12 -0700 (Fri, 22 Apr 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/RMassBank | | Last Changed Rev: 116141 / Revision: 116712 | | Last Changed Date: 2016-04-11 07:53:43 -0700 (Mon, 11 Apr 2016) |
| zin1 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK | |  |
| moscato1 | Windows Server 2008 R2 Standard (64-bit) / x64 | NotNeeded | OK | [ OK ] | OK | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | OK | OK | |
##############################################################################
##############################################################################
###
### Running command:
###
### rm -rf RMassBank.buildbin-libdir RMassBank.Rcheck && mkdir RMassBank.buildbin-libdir RMassBank.Rcheck && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=RMassBank.buildbin-libdir RMassBank_1.12.1.tar.gz >RMassBank.Rcheck\00install.out 2>&1 && cp RMassBank.Rcheck\00install.out RMassBank-install.out && D:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=RMassBank.buildbin-libdir --install="check:RMassBank-install.out" --force-multiarch --no-vignettes --timings RMassBank_1.12.1.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'D:/biocbld/bbs-3.2-bioc/meat/RMassBank.Rcheck'
* using R version 3.2.4 (2016-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'RMassBank/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'RMassBank' version '1.12.1'
* package encoding: UTF-8
* 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 'RMassBank' 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
* 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 ... NOTE
'library' or 'require' calls in package code:
'CAMERA' 'RMassBankData' 'RUnit' 'gplots' 'ontoCAT' 'xcms'
Please use :: or requireNamespace() instead.
See section 'Suggested packages' in the 'Writing R Extensions' manual.
Package in Depends field not imported from: 'Rcpp'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.getInstruments: no visible global function definition for
'getOntology'
.getInstruments: no visible global function definition for
'getAllTermChildrenById'
.getInstruments: no visible global function definition for 'getLabel'
.isOboReadable: no visible global function definition for 'getOntology'
.isOboReadable: no visible global function definition for
'getOntologyAccession'
.unitTestRMB: no visible global function definition for
'defineTestSuite'
.unitTestRMB: no visible global function definition for 'runTestSuite'
.unitTestRMB: no visible global function definition for
'printTextProtocol'
findMsMsHRperxcms.direct: no visible global function definition for
'xcmsRaw'
findMsMsHRperxcms.direct: no visible global function definition for
'msn2xcmsRaw'
findMsMsHRperxcms.direct: no visible global function definition for
'xcmsSet'
findMsMsHRperxcms.direct: no visible global function definition for
'peaks<-'
findMsMsHRperxcms.direct: no visible binding for global variable
'findPeaks'
findMsMsHRperxcms.direct: no visible global function definition for
'xsAnnotate'
findMsMsHRperxcms.direct: no visible global function definition for
'groupFWHM'
findMsMsHRperxcms.direct: no visible global function definition for
'plotPsSpectrum'
findMsMsHRperxcms.direct: no visible global function definition for
'getpspectra'
msmsRead.RAW: no visible global function definition for 'xcmsSet'
msmsRead.RAW: no visible global function definition for 'peaks<-'
msmsRead.RAW: no visible binding for global variable 'findPeaks'
msmsRead.RAW: no visible global function definition for 'xsAnnotate'
msmsRead.RAW: no visible global function definition for 'groupFWHM'
msmsRead.RAW: no visible global function definition for
'plotPsSpectrum'
msmsRead.RAW: no visible global function definition for 'getpspectra'
plotRecalibration.direct: no visible global function definition for
'hist2d'
validate: no visible global function definition for 'defineTestSuite'
validate: no visible global function definition for 'runTestSuite'
validate: no visible global function definition for 'printHTMLProtocol'
* 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' ... [13s] OK
** running examples for arch 'x64' ... [15s] OK
* 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: 2 NOTEs
See
'D:/biocbld/bbs-3.2-bioc/meat/RMassBank.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'RMassBank' ...
** 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 'RMassBank' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'RMassBank' as RMassBank_1.12.1.zip
* DONE (RMassBank)