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INSTALL report for biovizBase on malbec1

This page was generated on 2020-10-14 11:08:43 -0400 (Wed, 14 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE biovizBase PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 183/1930HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biovizBase 1.37.0
Michael Lawrence
Snapshot Date: 2020-10-13 14:40:34 -0400 (Tue, 13 Oct 2020)
URL: https://git.bioconductor.org/packages/biovizBase
Branch: master
Last Commit: 05615a7
Last Changed Date: 2020-04-27 14:27:05 -0400 (Mon, 27 Apr 2020)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64 [ OK ] OK  WARNINGS UNNEEDED, same version exists in internal repository
nebbiolo1 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK  WARNINGS 
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
riesling1 Windows Server 2019 Standard / x64  OK  OK  WARNINGS  OK 
merida1 macOS 10.14.6 Mojave / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: biovizBase
Version: 1.37.0
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL biovizBase
StartedAt: 2020-10-13 16:49:03 -0400 (Tue, 13 Oct 2020)
EndedAt: 2020-10-13 16:50:03 -0400 (Tue, 13 Oct 2020)
EllapsedTime: 59.7 seconds
RetCode: 0
Status:  OK 

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL biovizBase
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* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’
* installing *source* package ‘biovizBase’ ...
** using staged installation
** libs
gcc -I"/home/biocbuild/bbs-3.12-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-3.12-bioc/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -Wall -c bin_offsets.c -o bin_offsets.o
bin_offsets.c: In function ‘scan_bam_bin_offsets’:
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-3.12-bioc/R/include/R_ext/RS.h:34:0,
                 from /home/biocbuild/bbs-3.12-bioc/R/include/Rdefines.h:37,
                 from bin_offsets.h:1,
                 from bin_offsets.c:3:
/usr/include/string.h:139:12: 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-3.12-bioc/R/lib -L/usr/local/lib -o biovizBase.so R_init_biovizBase.o bin_offsets.o -L/home/biocbuild/bbs-3.12-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.12-bioc/R/library/00LOCK-biovizBase/00new/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 from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biovizBase)