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INSTALL report for biovizBase on malbec2

This page was generated on 2018-10-17 08:23:55 -0400 (Wed, 17 Oct 2018).

Package 152/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biovizBase 1.28.2
Michael Lawrence
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/biovizBase
Branch: RELEASE_3_7
Last Commit: 43d0906
Last Changed Date: 2018-08-22 18:26:08 -0400 (Wed, 22 Aug 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64 [ OK ] OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: biovizBase
Version: 1.28.2
Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL biovizBase
StartedAt: 2018-10-15 18:33:14 -0400 (Mon, 15 Oct 2018)
EndedAt: 2018-10-15 18:33:38 -0400 (Mon, 15 Oct 2018)
EllapsedTime: 24.4 seconds
RetCode: 0
Status:  OK 

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL biovizBase
###
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* installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’
* installing *source* package ‘biovizBase’ ...
** libs
gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -Wall -c R_init_biovizBase.c -o R_init_biovizBase.o
gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -Wall -c bin_offsets.c -o bin_offsets.o
In file included from /usr/include/string.h:630:0,
                 from /home/biocbuild/bbs-3.7-bioc/R/include/R_ext/RS.h:34,
                 from /home/biocbuild/bbs-3.7-bioc/R/include/Rdefines.h:37,
                 from bin_offsets.h:1,
                 from bin_offsets.c:3:
bin_offsets.c: In function ‘scan_bam_bin_offsets’:
bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of ‘strlen’ differ in signedness [-Wpointer-sign]
   if (strncmp(b, "BAI\1", 4))
               ^
In file included from /home/biocbuild/bbs-3.7-bioc/R/include/R_ext/RS.h:34:0,
                 from /home/biocbuild/bbs-3.7-bioc/R/include/Rdefines.h:37,
                 from bin_offsets.h:1,
                 from bin_offsets.c:3:
/usr/include/string.h:394:15: note: expected ‘const char *’ but argument is of type ‘Rbyte * {aka unsigned char *}’
 extern size_t strlen (const char *__s)
               ^
In file included from /usr/include/string.h:630:0,
                 from /home/biocbuild/bbs-3.7-bioc/R/include/R_ext/RS.h:34,
                 from /home/biocbuild/bbs-3.7-bioc/R/include/Rdefines.h:37,
                 from bin_offsets.h:1,
                 from bin_offsets.c:3:
bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of ‘__builtin_strlen’ differ in signedness [-Wpointer-sign]
   if (strncmp(b, "BAI\1", 4))
               ^
bin_offsets.c:57:15: note: expected ‘const char *’ but argument is of type ‘Rbyte * {aka unsigned char *}’
bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of ‘__builtin_strcmp’ differ in signedness [-Wpointer-sign]
   if (strncmp(b, "BAI\1", 4))
               ^
bin_offsets.c:57:15: note: expected ‘const char *’ but argument is of type ‘Rbyte * {aka unsigned char *}’
bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of ‘__builtin_strlen’ differ in signedness [-Wpointer-sign]
   if (strncmp(b, "BAI\1", 4))
               ^
bin_offsets.c:57:15: note: expected ‘const char *’ but argument is of type ‘Rbyte * {aka unsigned char *}’
bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of ‘__builtin_strcmp’ differ in signedness [-Wpointer-sign]
   if (strncmp(b, "BAI\1", 4))
               ^
bin_offsets.c:57:15: note: expected ‘const char *’ but argument is of type ‘Rbyte * {aka unsigned char *}’
bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of ‘__builtin_strcmp’ differ in signedness [-Wpointer-sign]
   if (strncmp(b, "BAI\1", 4))
               ^
bin_offsets.c:57:15: note: expected ‘const char *’ but argument is of type ‘Rbyte * {aka unsigned char *}’
bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of ‘__builtin_strcmp’ differ in signedness [-Wpointer-sign]
   if (strncmp(b, "BAI\1", 4))
               ^
bin_offsets.c:57:15: note: expected ‘const char *’ but argument is of type ‘Rbyte * {aka unsigned char *}’
bin_offsets.c:57:15: warning: pointer targets in passing argument 1 of ‘strncmp’ differ in signedness [-Wpointer-sign]
   if (strncmp(b, "BAI\1", 4))
               ^
In file included from /home/biocbuild/bbs-3.7-bioc/R/include/R_ext/RS.h:34:0,
                 from /home/biocbuild/bbs-3.7-bioc/R/include/Rdefines.h:37,
                 from bin_offsets.h:1,
                 from bin_offsets.c:3:
/usr/include/string.h:143:12: note: expected ‘const char *’ but argument is of type ‘Rbyte * {aka unsigned char *}’
 extern int strncmp (const char *__s1, const char *__s2, size_t __n)
            ^
gcc -shared -L/home/biocbuild/bbs-3.7-bioc/R/lib -L/usr/local/lib -o biovizBase.so R_init_biovizBase.o bin_offsets.o -L/home/biocbuild/bbs-3.7-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.7-bioc/R/library/biovizBase/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (biovizBase)