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BUILD report for ArrayExpressHTS on malbec2

This page was generated on 2019-04-09 11:30:39 -0400 (Tue, 09 Apr 2019).

Package 73/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ArrayExpressHTS 1.33.1
Angela Goncalves , Andrew Tikhonov
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/ArrayExpressHTS
Branch: master
Last Commit: 0db10b7
Last Changed Date: 2019-01-04 13:08:26 -0400 (Fri, 04 Jan 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  ERROR [ ERROR ] skipped 
tokay2 Windows Server 2012 R2 Standard / x64 ...NOT SUPPORTED...
celaya2 OS X 10.11.6 El Capitan / x86_64  ERROR  ERROR  skipped  skipped 
merida2 OS X 10.11.6 El Capitan / x86_64  ERROR  ERROR  skipped  skipped 

Summary

Package: ArrayExpressHTS
Version: 1.33.1
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data ArrayExpressHTS
StartedAt: 2019-04-08 19:35:32 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 19:35:34 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 2.5 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data ArrayExpressHTS
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* checking for file ‘ArrayExpressHTS/DESCRIPTION’ ... OK
* preparing ‘ArrayExpressHTS’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘ArrayExpressHTS’ ...
** using staged installation
** libs
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rsamtools/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c addXS.c -o addXS.o
addXS.c: In function ‘addXS’:
addXS.c:42:5: warning: implicit declaration of function ‘Rprintf’; did you mean ‘dprintf’? [-Wimplicit-function-declaration]
     Rprintf("What?\n");
     ^˜˜˜˜˜˜
     dprintf
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rsamtools/include" -I/usr/local/include  -fpic  -g -O2  -Wall -c fltbam.c -o fltbam.o
fltbam.c:2:10: fatal error: samtools/sam.h: No such file or directory
 #include "samtools/sam.h"
          ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
compilation terminated.
/home/biocbuild/bbs-3.9-bioc/R/etc/Makeconf:166: recipe for target 'fltbam.o' failed
make: *** [fltbam.o] Error 1
ERROR: compilation failed for package ‘ArrayExpressHTS’
* removing ‘/tmp/RtmpNF860B/Rinst7686745bb620/ArrayExpressHTS’
      -----------------------------------
ERROR: package installation failed