Vince Buffalo
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/qrqc |
| Branch: RELEASE_3_7 |
| Last Commit: b8202aa |
| Last Changed Date: 2018-04-30 10:35:17 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:23:33 -0400 (Wed, 17 Oct 2018).
| Package 1159/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| qrqc 1.34.0 Vince Buffalo
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | [ OK ] | OK | WARNINGS | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: qrqc |
| Version: 1.34.0 |
| Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL qrqc |
| StartedAt: 2018-10-15 18:34:34 -0400 (Mon, 15 Oct 2018) |
| EndedAt: 2018-10-15 18:35:03 -0400 (Mon, 15 Oct 2018) |
| EllapsedTime: 28.4 seconds |
| RetCode: 0 |
| Status: OK |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL qrqc
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’
* installing *source* package ‘qrqc’ ...
** libs
gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c R_init_io.c -o R_init_io.o
gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG -D_USE_KNETFILE -DBGZF_CACHE -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -I"/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include" -I/usr/local/include -fpic -g -O2 -Wall -c io.c -o io.o
io.c: In function ‘summarize_file’:
io.c:32:25: warning: initialization from incompatible pointer type [-Wincompatible-pointer-types]
#define FILE_OPEN(x, m) (gzopen(x, m))
^
io.c:347:19: note: in expansion of macro ‘FILE_OPEN’
FILE_TYPE *fp = FILE_OPEN(CHAR(STRING_ELT(filename, 0)), "r");
^
io.c:350:21: warning: passing argument 1 of ‘kseq_init’ from incompatible pointer type [-Wincompatible-pointer-types]
block = kseq_init(fp);
^
In file included from io.c:11:0:
/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include/samtools/kseq.h:152:16: note: expected ‘gzFile {aka struct gzFile_s *}’ but argument is of type ‘struct gzFile_s **’
SCOPE kseq_t *kseq_init(type_t fd) \
^
/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include/samtools/kseq.h:223:2: note: in expansion of macro ‘__KSEQ_BASIC’
__KSEQ_BASIC(SCOPE, type_t) \
^
/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include/samtools/kseq.h:226:35: note: in expansion of macro ‘KSEQ_INIT2’
#define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
^
io.c:34:1: note: in expansion of macro ‘KSEQ_INIT’
KSEQ_INIT(gzFile, gzread)
^
io.c:452:21: warning: passing argument 1 of ‘kseq_init’ from incompatible pointer type [-Wincompatible-pointer-types]
block = kseq_init(fp);
^
In file included from io.c:11:0:
/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include/samtools/kseq.h:152:16: note: expected ‘gzFile {aka struct gzFile_s *}’ but argument is of type ‘struct gzFile_s **’
SCOPE kseq_t *kseq_init(type_t fd) \
^
/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include/samtools/kseq.h:223:2: note: in expansion of macro ‘__KSEQ_BASIC’
__KSEQ_BASIC(SCOPE, type_t) \
^
/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include/samtools/kseq.h:226:35: note: in expansion of macro ‘KSEQ_INIT2’
#define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
^
io.c:34:1: note: in expansion of macro ‘KSEQ_INIT’
KSEQ_INIT(gzFile, gzread)
^
io.c:453:14: warning: passing argument 1 of ‘gzclose’ from incompatible pointer type [-Wincompatible-pointer-types]
FILE_CLOSE(fp);
^
io.c:33:32: note: in definition of macro ‘FILE_CLOSE’
#define FILE_CLOSE(x) (gzclose(x))
^
In file included from io.c:30:0:
/usr/include/zlib.h:1511:24: note: expected ‘gzFile {aka struct gzFile_s *}’ but argument is of type ‘struct gzFile_s **’
ZEXTERN int ZEXPORT gzclose OF((gzFile file));
^
In file included from io.c:11:0:
io.c: At top level:
/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include/samtools/kseq.h:158:13: warning: ‘kseq_destroy’ defined but not used [-Wunused-function]
SCOPE void kseq_destroy(kseq_t *ks) \
^
/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include/samtools/kseq.h:223:2: note: in expansion of macro ‘__KSEQ_BASIC’
__KSEQ_BASIC(SCOPE, type_t) \
^
/home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/include/samtools/kseq.h:226:35: note: in expansion of macro ‘KSEQ_INIT2’
#define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)
^
io.c:34:1: note: in expansion of macro ‘KSEQ_INIT’
KSEQ_INIT(gzFile, gzread)
^
gcc -shared -L/home/biocbuild/bbs-3.7-bioc/R/lib -L/usr/local/lib -o qrqc.so R_init_io.o io.o /home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib//libbam.a /home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib//libbcf.a /home/biocbuild/bbs-3.7-bioc/R/library/Rsamtools/usrlib//libtabix.a -lz -pthread -L/home/biocbuild/bbs-3.7-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.7-bioc/R/library/qrqc/libs
** R
** 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 (qrqc)