Aaron Lun
| Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020) |
| URL: https://git.bioconductor.org/packages/csaw |
| Branch: RELEASE_3_10 |
| Last Commit: 11728da |
| Last Changed Date: 2019-10-29 13:09:05 -0400 (Tue, 29 Oct 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2020-04-15 12:09:21 -0400 (Wed, 15 Apr 2020).
| Package 387/1823 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| csaw 1.20.0 Aaron Lun
| malbec1 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | [ OK ] | OK | WARNINGS | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | |
| Package: csaw |
| Version: 1.20.0 |
| Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL csaw |
| StartedAt: 2020-04-14 19:08:42 -0400 (Tue, 14 Apr 2020) |
| EndedAt: 2020-04-14 19:10:33 -0400 (Tue, 14 Apr 2020) |
| EllapsedTime: 111.4 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL csaw
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* installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’
* installing *source* package ‘csaw’ ...
** using staged installation
** libs
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c annotator.cpp -o annotator.o
annotator.cpp: In function ‘SEXPREC* annotate_overlaps(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
annotator.cpp:47:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
while (counter < nolaps && query[counter]==curreg) {
~~~~~~~~^~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c bam_utils.cpp -o bam_utils.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c best_in_cluster.cpp -o best_in_cluster.o
best_in_cluster.cpp: In function ‘SEXPREC* best_in_cluster(SEXP, SEXP, SEXP)’:
best_in_cluster.cpp:11:10: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (nwin!=clustids.size() || nwin!=winweight.size()) {
~~~~^~~~~~~~~~~~~~~~~
best_in_cluster.cpp:11:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (nwin!=clustids.size() || nwin!=winweight.size()) {
~~~~^~~~~~~~~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c check_bimodality.cpp -o check_bimodality.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c correlate_reads.cpp -o correlate_reads.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c find_maxima.cpp -o find_maxima.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c get_cluster_stats.cpp -o get_cluster_stats.o
get_cluster_stats.cpp: In function ‘SEXPREC* get_cluster_stats(SEXP, SEXP, SEXP, SEXP, SEXP)’:
get_cluster_stats.cpp:17:11: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (nwin!=current.size()) {
~~~~^~~~~~~~~~~~~~~~
get_cluster_stats.cpp:28:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (clustid.size()!=nwin) {
~~~~~~~~~~~~~~^~~~~~
get_cluster_stats.cpp:33:10: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (nwin!=winweight.size()) {
~~~~^~~~~~~~~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c get_profile.cpp -o get_profile.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c get_rle_counts.cpp -o get_rle_counts.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c init.cpp -o init.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c intersector.cpp -o intersector.o
intersector.cpp: In constructor ‘intersector::intersector(SEXP, SEXP)’:
intersector.cpp:8:10: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (N!=elements.size()) {
~^~~~~~~~~~~~~~~~~
intersector.cpp:32:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (current < 0 || current >= nelements) {
~~~~~~~~^~~~~~~~~~~~
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c merge_windows.cpp -o merge_windows.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c pair_reads.cpp -o pair_reads.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c single_reads.cpp -o single_reads.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.10-bioc/R/include" -DNDEBUG -D_FILE_OFFSET_BITS=64 -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/zlibbioc/include" -I"/home/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c utils.cpp -o utils.o
g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.10-bioc/R/lib -L/usr/local/lib -o csaw.so annotator.o bam_utils.o best_in_cluster.o check_bimodality.o correlate_reads.o find_maxima.o get_cluster_stats.o get_profile.o get_rle_counts.o init.o intersector.o merge_windows.o pair_reads.o single_reads.o utils.o /home/biocbuild/bbs-3.10-bioc/R/library/Rhtslib/usrlib/libhts.a -lcurl -L/home/biocbuild/bbs-3.10-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.10-bioc/R/library/00LOCK-csaw/00new/csaw/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 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 (csaw)