Wei Shi
| Snapshot Date: 2019-04-15 17:01:12 -0400 (Mon, 15 Apr 2019) |
| URL: https://git.bioconductor.org/packages/Rsubread |
| Branch: RELEASE_3_8 |
| Last Commit: c1d1d2b |
| Last Changed Date: 2019-03-05 20:40:08 -0400 (Tue, 05 Mar 2019) |
| Back to Multiple platform build/check report for BioC 3.8 |
|
This page was generated on 2019-04-16 11:49:07 -0400 (Tue, 16 Apr 2019).
| Package 1356/1649 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| Rsubread 1.32.4 Wei Shi
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | [ OK ] | OK | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: Rsubread |
| Version: 1.32.4 |
| Command: /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL Rsubread |
| StartedAt: 2019-04-15 17:57:16 -0400 (Mon, 15 Apr 2019) |
| EndedAt: 2019-04-15 17:57:44 -0400 (Mon, 15 Apr 2019) |
| EllapsedTime: 27.4 seconds |
| RetCode: 0 |
| Status: OK |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL Rsubread ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’ * installing *source* package ‘Rsubread’ ... @@@@@ The operating system is Linux. ** libs gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c HelperFunctions.c -o HelperFunctions.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c LRMbase-index.c -o LRMbase-index.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c LRMchro-event.c -o LRMchro-event.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c LRMfile-io.c -o LRMfile-io.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c LRMhashtable.c -o LRMhashtable.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c LRMhelper.c -o LRMhelper.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c LRMseek-zlib.c -o LRMseek-zlib.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c LRMsorted-hashtable.c -o LRMsorted-hashtable.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c R_wrapper.c -o R_wrapper.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c SNPCalling.c -o SNPCalling.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c aligner.c -o aligner.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c atgcContent.c -o atgcContent.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c build-sam-index.c -o build-sam-index.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c core-bigtable.c -o core-bigtable.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c core-indel.c -o core-indel.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c core-interface-aligner.c -o core-interface-aligner.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c core-interface-subjunc.c -o core-interface-subjunc.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c core-junction.c -o core-junction.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c core.c -o core.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c detection-calls.c -o detection-calls.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c detectionCall.c -o detectionCall.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c detectionCallAnnotation.c -o detectionCallAnnotation.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c exon-algorithms.c -o exon-algorithms.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c exon-align-indel.c -o exon-align-indel.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c exon-align.c -o exon-align.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c flattenAnnotations.c -o flattenAnnotations.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c fullscan.c -o fullscan.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c fusion-align.c -o fusion-align.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c gene-algorithms.c -o gene-algorithms.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c gene-value-index.c -o gene-value-index.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c hashtable.c -o hashtable.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c index-builder.c -o index-builder.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c input-files.c -o input-files.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c interval_merge.c -o interval_merge.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c long-hashtable.c -o long-hashtable.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c longread-mapping.c -o longread-mapping.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c mergeVCF.c -o mergeVCF.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c processExons.c -o processExons.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c propmapped.c -o propmapped.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c qualityScores.c -o qualityScores.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c read-repair.c -o read-repair.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c readSummary.c -o readSummary.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c removeDupReads.c -o removeDupReads.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c sam2bed.c -o sam2bed.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c sambam-file.c -o sambam-file.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c seek-zlib.c -o seek-zlib.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c sorted-hashtable.c -o sorted-hashtable.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c sublog.c -o sublog.o gcc -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I/usr/local/include -DMAKE_FOR_EXON -D SUBREAD_VERSION="\"Rsubread 1.32.4\"" -fpic -g -O2 -Wall -c tx-unique.c -o tx-unique.o gcc -shared -L/home/biocbuild/bbs-3.8-bioc/R/lib -L/usr/local/lib -o Rsubread.so HelperFunctions.o LRMbase-index.o LRMchro-event.o LRMfile-io.o LRMhashtable.o LRMhelper.o LRMseek-zlib.o LRMsorted-hashtable.o R_wrapper.o SNPCalling.o aligner.o atgcContent.o build-sam-index.o core-bigtable.o core-indel.o core-interface-aligner.o core-interface-subjunc.o core-junction.o core.o detection-calls.o detectionCall.o detectionCallAnnotation.o exon-algorithms.o exon-align-indel.o exon-align.o flattenAnnotations.o fullscan.o fusion-align.o gene-algorithms.o gene-value-index.o hashtable.o index-builder.o input-files.o interval_merge.o long-hashtable.o longread-mapping.o mergeVCF.o processExons.o propmapped.o qualityScores.o read-repair.o readSummary.o removeDupReads.o sam2bed.o sambam-file.o seek-zlib.o sorted-hashtable.o sublog.o tx-unique.o -lz -lpthread -DMAKE_FOR_EXON -L/home/biocbuild/bbs-3.8-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.8-bioc/R/library/Rsubread/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ‘Rsubread.Rnw’ ** testing if installed package can be loaded * DONE (Rsubread)