############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/SGSeq_1.28.0.tar.gz && rm -rf SGSeq.buildbin-libdir && mkdir SGSeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SGSeq.buildbin-libdir SGSeq_1.28.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL SGSeq_1.28.0.zip && rm SGSeq_1.28.0.tar.gz SGSeq_1.28.0.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 1258k 100 1258k 0 0 1526k 0 --:--:-- --:--:-- --:--:-- 1529k install for i386 * installing *source* package 'SGSeq' ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'SGSeq' finding HTML links ... done SGFeatureCounts html SGFeatures html SGSegments html SGVariantCounts html SGVariants html TxFeatures html analyzeFeatures html analyzeVariants html annotate html annotateSGVariants html assays html convertToSGFeatures html convertToTxFeatures html exonCompatible html exportFeatures html filterFeatures html findOverlapsRanges html findSGVariants html getBamInfo html getSGFeatureCounts html getSGFeatureCountsPerSample html getSGVariantCounts html gr html importTranscripts html junctionCompatible html makeSGFeatureCounts html makeVariantNames html mergeTxFeatures html plotCoverage html plotFeatures html plotSpliceGraph html plotVariants html predictCandidatesInternal html predictCandidatesTerminal html predictExonsInternal html predictExonsTerminal html predictJunctions html predictSpliced html predictTxFeatures html predictTxFeaturesPerSample html predictTxFeaturesPerStrand html predictVariantEffects html processTerminalExons html removeExonsIsolated html sgf_ann html sgf_pred html sgfc_ann html sgfc_pred html sgv_ann html sgv_pred html sgvc_ann html sgvc_ann_from_bam html sgvc_pred html sgvc_pred_from_bam html si html slots html splicesiteOverlap html tx html txf_ann html txf_pred html updateObject html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'SGSeq' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'SGSeq' as SGSeq_1.28.0.zip * DONE (SGSeq) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'SGSeq' successfully unpacked and MD5 sums checked