############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/breakpointR_1.10.0.tar.gz && rm -rf breakpointR.buildbin-libdir && mkdir breakpointR.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=breakpointR.buildbin-libdir breakpointR_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL breakpointR_1.10.0.zip && rm breakpointR_1.10.0.tar.gz breakpointR_1.10.0.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 8 736k 8 65939 0 0 419k 0 0:00:01 --:--:-- 0:00:01 418k 100 736k 100 736k 0 0 1519k 0 --:--:-- --:--:-- --:--:-- 1518k install for i386 * installing *source* package 'breakpointR' ... ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'breakpointR' finding HTML links ... done BreakPoint html finding level-2 HTML links ... done breakSeekr html breakpointR-package html breakpointr html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/breakpointR.buildbin-libdir/00LOCK-breakpointR/00new/breakpointR/help/breakpointr.html breakpointr2UCSC html collapseBins html confidenceInterval html confidenceInterval.binomial html createCompositeFile html deltaWCalculator html deltaWCalculatorVariousWindows html exportRegions html genotype.binom html genotype.fisher html genotyping html hotspotter html insertchr html loadFromFiles html plotBreakpoints html plotBreakpointsPerChr html plotHeatmap html ranges2UCSC html readBamFileAsGRanges html readConfig html removeDoubleSCEs html removeReadPileupSpikes html runBreakpointr html summarizeBreaks html synchronizeReadDir html transCoord html writeConfig 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 'breakpointR' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'breakpointR' as breakpointR_1.10.0.zip * DONE (breakpointR) * installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library' package 'breakpointR' successfully unpacked and MD5 sums checked