Thanks very much Andrea ________________________________ From: Obenchain, Valerie <[email protected]> Sent: 07 March 2017 17:39:58 To: Rodriguez Martinez, Andrea; [email protected] Subject: Re: [Bioc-devel] build report with error
Hi Andrea, Our emails just crossed: https://stat.ethz.ch/pipermail/bioc-devel/2017-March/010543.html Anytime you see the same error across many (in this case hundreds of) packages it's safe to assume it's a build system error. I'll try to keep everyone informed of known failures by posting to this list. Thanks for keeping an eye on the build report. Valerie On 03/07/2017 09:28 AM, Rodriguez Martinez, Andrea wrote: > Hi, > > > I just noticed that my packages MetaboSignal and MWASTools have a build > report with error for Windows in the devel branch. I wonder if there is > something I can do about this. See the specific error messages below: > > > -For MetaboSignal it says: > > ## > ### Running command: > ### > ### chmod a+r MetaboSignal -R && > C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD build --keep-empty-dirs > --no-resave-data MetaboSignal > ### > ############################################################################## > ############################################################################## > > > * checking for file 'MetaboSignal/DESCRIPTION' ... OK > * preparing 'MetaboSignal': > * checking DESCRIPTION meta-information ... OK > * installing the package to build vignettes > Warning: running command > '"C:/Users/biocbuild/bbs-3.5-bioc/R/bin/x64/Rcmd.exe" INSTALL -l > "C:\Users\biocbuild\bbs-3.5-bioc\tmpdir\RtmpUdQmpF\Rinst2180771a78c0" > --no-multiarch > "C:/Users/biocbuild/bbs-3.5-bioc/tmpdir/RtmpUdQmpF/Rbuild218072f9557/MetaboSignal"' > had status 1 > ----------------------------------- > * installing *source* package 'MetaboSignal' ... > ** R > ** data > *** moving datasets to lazyload DB > ** inst > ** preparing package for lazy loading > Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : > there is no package called 'Biobase' > ERROR: lazy loading failed for package 'MetaboSignal' > * removing > 'C:/Users/biocbuild/bbs-3.5-bioc/tmpdir/RtmpUdQmpF/Rinst2180771a78c0/MetaboSignal' > ----------------------------------- > ERROR: package installation failed > > -For MWASTools it says: > > ############################################################################## > > ############################################################################## > ### > ### Running command: > ### > ### rm -rf MWASTools.buildbin-libdir && mkdir MWASTools.buildbin-libdir && > C:\cygwin\bin\curl.exe -O > http://172.29.0.4/BBS/3.5/bioc/src/contrib/MWASTools_0.99.18.tar.gz && > C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build > --library=MWASTools.buildbin-libdir --merge-multiarch > MWASTools_0.99.18.tar.gz && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD > INSTALL MWASTools_0.99.18.zip && rm MWASTools_0.99.18.tar.gz > MWASTools_0.99.18.zip > ### > ############################################################################## > ############################################################################## > > > % Total % Received % Xferd Average Speed Time Time Time > Current > Dload Upload Total Spent Left Speed > > 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 > 100 1418k 100 1418k 0 0 52.5M 0 --:--:-- --:--:-- --:--:-- 55.4M > > install for i386 > > * installing *source* package 'MWASTools' ... > ** R > ** data > *** moving datasets to lazyload DB > Warning: namespace 'SummarizedExperiment' is not available and has been > replaced > by .GlobalEnv when processing object 'metabo_SE' > Warning: namespace 'SummarizedExperiment' is not available and has been > replaced > by .GlobalEnv when processing object 'metabo_SE' > Warning: namespace 'SummarizedExperiment' is not available and has been > replaced > by .GlobalEnv when processing object 'targetMetabo_SE' > Warning: namespace 'SummarizedExperiment' is not available and has been > replaced > by .GlobalEnv when processing object 'targetMetabo_SE' > ** inst > ** preparing package for lazy loading > Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : > there is no package called 'S4Vectors' > ERROR: lazy loading failed for package 'MWASTools' > * removing > 'C:/Users/biocbuild/bbs-3.5-bioc/meat/MWASTools.buildbin-libdir/MWASTools' > Warning: running command 'C:/Users/biocbuild/bbs-3.5-bioc/R/bin/i386/Rcmd.exe > INSTALL --library=MWASTools.buildbin-libdir MWASTools_0.99.18.tar.gz > --no-multiarch' had status 1 > > Thanks very much, > > > Andrea > > [[alternative HTML version deleted]] > > _______________________________________________ > [email protected] mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > This email message may contain legally privileged and/or confidential information. 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