scran 1.4.5
Aaron Lun
| Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/scran | | Last Changed Rev: 131271 / Revision: 131943 | | Last Changed Date: 2017-07-17 04:49:26 -0400 (Mon, 17 Jul 2017) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | [ OK ] | OK | OK | |  |
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |
| veracruz2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD INSTALL scran
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* installing to library ‘/home/biocbuild/bbs-3.5-bioc/R/library’
* installing *source* package ‘scran’ ...
** libs
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c build_snn.cpp -o build_snn.o
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c compute_CV2.cpp -o compute_CV2.o
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c compute_cordist.cpp -o compute_cordist.o
compute_cordist.cpp: In instantiation of ‘SEXPREC* cordist_internal(const T*, const matrix_info&, SEXP, SEXP) [with T = int; SEXP = SEXPREC*]’:
compute_cordist.cpp:142:73: required from here
compute_cordist.cpp:119:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (size_t s=0; s<slen; ++s) {
^
compute_cordist.cpp: In instantiation of ‘SEXPREC* cordist_internal(const T*, const matrix_info&, SEXP, SEXP) [with T = double; SEXP = SEXPREC*]’:
compute_cordist.cpp:144:76: required from here
compute_cordist.cpp:119:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
compute_cordist.cpp: In instantiation of ‘void average_ranks(const T*, const matrix_info&, const int*, int, double*) [with T = int]’:
compute_cordist.cpp:79:22: required from ‘SEXPREC* cordist_internal(const T*, const matrix_info&, SEXP, SEXP) [with T = int; SEXP = SEXPREC*]’
compute_cordist.cpp:142:73: required from here
compute_cordist.cpp:12:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (s=0; s<subset_len; ++s) {
^
compute_cordist.cpp:25:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (s=0; s<subset_len; ++s) {
^
compute_cordist.cpp:29:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (s==subset_len-1 || collected[s].first!=collected[s+1].first) {
^
compute_cordist.cpp:50:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (s=0; s<subset_len; ++s) {
^
compute_cordist.cpp: In instantiation of ‘void average_ranks(const T*, const matrix_info&, const int*, int, double*) [with T = double]’:
compute_cordist.cpp:79:22: required from ‘SEXPREC* cordist_internal(const T*, const matrix_info&, SEXP, SEXP) [with T = double; SEXP = SEXPREC*]’
compute_cordist.cpp:144:76: required from here
compute_cordist.cpp:12:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (s=0; s<subset_len; ++s) {
^
compute_cordist.cpp:25:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (s=0; s<subset_len; ++s) {
^
compute_cordist.cpp:29:18: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (s==subset_len-1 || collected[s].first!=collected[s+1].first) {
^
compute_cordist.cpp:50:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (s=0; s<subset_len; ++s) {
^
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c compute_rho.cpp -o compute_rho.o
compute_rho.cpp: In function ‘SEXPREC* combine_corP(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
compute_rho.cpp:421:31: warning: unused variable ‘temp_abs_rho’ [-Wunused-variable]
double temp_combined, temp_abs_rho;
^
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c estimate_variance.cpp -o estimate_variance.o
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c forge_system.cpp -o forge_system.o
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c init.cpp -o init.o
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c matrix_info.cpp -o matrix_info.o
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c overlap_exprs.cpp -o overlap_exprs.o
overlap_exprs.cpp: In instantiation of ‘SEXPREC* overlap_exprs_internal(const T*, const matrix_info&, SEXP, SEXP, T) [with T = int; SEXP = SEXPREC*]’:
overlap_exprs.cpp:138:96: required from here
overlap_exprs.cpp:26:47: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (cursource[j]<1 || cursource[j]>ncells) {
^
overlap_exprs.cpp: In instantiation of ‘SEXPREC* overlap_exprs_internal(const T*, const matrix_info&, SEXP, SEXP, T) [with T = double; SEXP = SEXPREC*]’:
overlap_exprs.cpp:140:96: required from here
overlap_exprs.cpp:26:47: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c run_dormqr.cpp -o run_dormqr.o
g++ -I/home/biocbuild/bbs-3.5-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c shuffle_scores.cpp -o shuffle_scores.o
shuffle_scores.cpp: In instantiation of ‘SEXPREC* shuffle_scores_internal(SEXP, const T*, const matrix_info&, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP) [with T = int; SEXP = SEXPREC*]’:
shuffle_scores.cpp:104:120: required from here
shuffle_scores.cpp:24:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (start < 0 || last > emat.ncol) { throw std::runtime_error("cell indices are out of range"); }
^
shuffle_scores.cpp: In instantiation of ‘SEXPREC* shuffle_scores_internal(SEXP, const T*, const matrix_info&, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP) [with T = double; SEXP = SEXPREC*]’:
shuffle_scores.cpp:106:123: required from here
shuffle_scores.cpp:24:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
g++ -shared -L/home/biocbuild/bbs-3.5-bioc/R/lib -L/usr/local/lib -o scran.so build_snn.o compute_CV2.o compute_cordist.o compute_rho.o estimate_variance.o forge_system.o init.o matrix_info.o overlap_exprs.o run_dormqr.o shuffle_scores.o -L/home/biocbuild/bbs-3.5-bioc/R/lib -lRlapack -L/home/biocbuild/bbs-3.5-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.5-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.5-bioc/R/library/scran/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (scran)