############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/InterMineR_1.16.0.tar.gz && rm -rf InterMineR.buildbin-libdir && mkdir InterMineR.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=InterMineR.buildbin-libdir InterMineR_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL InterMineR_1.16.0.zip && rm InterMineR_1.16.0.tar.gz InterMineR_1.16.0.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 2 4506k 2 97081 0 0 399k 0 0:00:11 --:--:-- 0:00:11 400k 39 4506k 39 1783k 0 0 1445k 0 0:00:03 0:00:01 0:00:02 1446k 71 4506k 71 3233k 0 0 1457k 0 0:00:03 0:00:02 0:00:01 1457k 100 4506k 100 4506k 0 0 1601k 0 0:00:02 0:00:02 --:--:-- 1601k install for i386 * installing *source* package 'InterMineR' ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading Creating a new generic function for 'intersect' in package 'InterMineR' Creating a new generic function for 'union' in package 'InterMineR' ** help Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:41: unexpected section header '\arguments' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:42: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:50: unexpected section header '\arguments' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:51: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:59: unexpected section header '\arguments' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:60: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:63: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:66: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:69: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:72: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:80: unexpected section header '\arguments' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:81: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:84: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:87: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:90: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:98: unexpected section header '\arguments' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:99: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:102: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:105: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:108: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:116: unexpected section header '\arguments' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:117: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:120: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:123: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:126: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:134: unexpected section header '\arguments' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:135: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:138: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:141: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:144: unknown macro '\item' Warning: C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpCupX1U/R.INSTALL1db85ac34efa/InterMineR/man/ListManager-methods.Rd:147: unknown macro '\item' *** installing help indices converting help for package 'InterMineR' finding HTML links ... done InterMineR-class html InterMineR-methods html InterMineR-package html ListManager-class html ListManager-methods html PL_DiabetesGenes html PL_FlyTF_site_specific_TFs html convertToGRanges html convertToGeneAnswers html convertToRangedSummarizedExperiment html doEnrichment html getDatasets html getGeneIds html getModel html getRelease html getTemplateQuery html getTemplates html getVersion html getWidgets html initInterMine html listDatasets html listMines html list_manager html REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.14-bioc/meat/InterMineR.buildbin-libdir/00LOCK-InterMineR/00new/InterMineR/help/webservice-methods.html newQuery html runQuery html setConstraints html setQuery html simplifyResult html summary html webservice-class html ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location Warning: multiple methods tables found for 'union' Warning: multiple methods tables found for 'intersect' ** testing if installed package can be loaded from final location Warning: multiple methods tables found for 'union' Warning: multiple methods tables found for 'intersect' ** testing if installed package keeps a record of temporary installation path install for x64 * installing *source* package 'InterMineR' ... ** testing if installed package can be loaded Warning: multiple methods tables found for 'union' Warning: multiple methods tables found for 'intersect' * MD5 sums packaged installation of 'InterMineR' as InterMineR_1.16.0.zip * DONE (InterMineR) * installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library' package 'InterMineR' successfully unpacked and MD5 sums checked