methylKit 1.8.1
Altuna Akalin , Alexander Gosdschan
| Snapshot Date: 2019-04-15 17:01:12 -0400 (Mon, 15 Apr 2019) |
| URL: https://git.bioconductor.org/packages/methylKit |
| Branch: RELEASE_3_8 |
| Last Commit: a1e00fc |
| Last Changed Date: 2018-12-11 05:41:18 -0400 (Tue, 11 Dec 2018) |
| 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 | |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.8-bioc/R/bin/R CMD INSTALL methylKit
###
##############################################################################
##############################################################################
* installing to library ‘/home/biocbuild/bbs-3.8-bioc/R/library’
* installing *source* package ‘methylKit’ ...
** libs
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/zlibbioc/include" -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.8-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rcpp/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.8-bioc/R/library/zlibbioc/include" -I/usr/local/include -fpic -g -O2 -Wall -c methCall.cpp -o methCall.o
methCall.cpp: In function ‘int process_sam(std::istream*, std::__cxx11::string&, std::__cxx11::string&, std::__cxx11::string&, int&, int&, int&, int, int)’:
methCall.cpp:708:84: warning: ‘CHGout’ may be used uninitialized in this function [-Wmaybe-uninitialized]
if(CHGstatus) { processCHmethHash(CHGmethHash,CHGout,mincov); std::fclose(CHGout); }
^
methCall.cpp:707:84: warning: ‘CHHout’ may be used uninitialized in this function [-Wmaybe-uninitialized]
if(CHHstatus) { processCHmethHash(CHHmethHash,CHHout,mincov); std::fclose(CHHout); }
^
methCall.cpp:706:81: warning: ‘out’ may be used uninitialized in this function [-Wmaybe-uninitialized]
if(CpGstatus) { processCGmethHash(CGmethHash,out,mincov); std::fclose(out); }
^
methCall.cpp: In function ‘int process_bam(std::__cxx11::string&, std::__cxx11::string&, std::__cxx11::string&, std::__cxx11::string&, int&, int&, int&, int)’:
methCall.cpp:1027:84: warning: ‘CHGout’ may be used uninitialized in this function [-Wmaybe-uninitialized]
if(CHGstatus) { processCHmethHash(CHGmethHash,CHGout,mincov); std::fclose(CHGout); }
^
methCall.cpp:1026:84: warning: ‘CHHout’ may be used uninitialized in this function [-Wmaybe-uninitialized]
if(CHHstatus) { processCHmethHash(CHHmethHash,CHHout,mincov); std::fclose(CHHout); }
^
methCall.cpp:1025:81: warning: ‘out’ may be used uninitialized in this function [-Wmaybe-uninitialized]
if(CpGstatus) { processCGmethHash(CGmethHash,out,mincov); std::fclose(out); }
^
methCall.cpp: In function ‘int process_single_bismark(std::istream*, std::__cxx11::string&, std::__cxx11::string&, std::__cxx11::string&, int&, int&, int&)’:
methCall.cpp:1254:84: warning: ‘CHGout’ may be used uninitialized in this function [-Wmaybe-uninitialized]
if(CHGstatus) { processCHmethHash(CHGmethHash,CHGout,mincov); std::fclose(CHGout); }
^
methCall.cpp:1253:84: warning: ‘CHHout’ may be used uninitialized in this function [-Wmaybe-uninitialized]
if(CHHstatus) { processCHmethHash(CHHmethHash,CHHout,mincov); std::fclose(CHHout); }
^
methCall.cpp:1252:81: warning: ‘out’ may be used uninitialized in this function [-Wmaybe-uninitialized]
if(CpGstatus) { processCGmethHash(CGmethHash,out,mincov); std::fclose(out); }
^
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.8-bioc/R/lib -L/usr/local/lib -o methylKit.so RcppExports.o methCall.o -L/home/biocbuild/bbs-3.8-bioc/R/library/Rhtslib/usrlib -Wl,-rpath,/home/biocbuild/bbs-3.8-bioc/R/library/Rhtslib/usrlib -lhts -lz -lm -lbz2 -llzma -lpthread -L/home/biocbuild/bbs-3.8-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.8-bioc/R/library/methylKit/libs
** R
** data
** 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 (methylKit)