scater 1.4.0
Davis McCarthy
| 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/scater | | Last Changed Rev: 129126 / Revision: 131943 | | Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 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 | |
##############################################################################
##############################################################################
###
### Running command:
###
### rm -rf scater.buildbin-libdir && mkdir scater.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://172.29.0.4/BBS/3.5/bioc/src/contrib/scater_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --library=scater.buildbin-libdir --merge-multiarch scater_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL scater_1.4.0.zip && rm scater_1.4.0.tar.gz scater_1.4.0.zip
###
##############################################################################
##############################################################################
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
39 1837k 39 720k 0 0 605k 0 0:00:03 0:00:01 0:00:02 606k
69 1837k 69 1283k 0 0 801k 0 0:00:02 0:00:01 0:00:01 802k
100 1837k 100 1837k 0 0 1143k 0 0:00:01 0:00:01 --:--:-- 1143k
install for i386
* installing *source* package 'scater' ...
** libs
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I"C:/local323/include" -O2 -Wall -mtune=core2 -c calc_exprs.cpp -o calc_exprs.o
calc_exprs.cpp: In instantiation of 'SEXPREC* calc_exprs_internal(const T*, const matrix_info&, SEXP, SEXP, SEXP, SEXP, SEXP) [with T = int; SEXP = SEXPREC*]':
calc_exprs.cpp:78:95: required from here
calc_exprs.cpp:5:46: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (!isReal(size_fac) || LENGTH(size_fac)!=MAT.ncol) {
^
calc_exprs.cpp: In instantiation of 'SEXPREC* calc_exprs_internal(const T*, const matrix_info&, SEXP, SEXP, SEXP, SEXP, SEXP) [with T = double; SEXP = SEXPREC*]':
calc_exprs.cpp:80:98: required from here
calc_exprs.cpp:5:46: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I"C:/local323/include" -O2 -Wall -mtune=core2 -c init.cpp -o init.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I"C:/local323/include" -O2 -Wall -mtune=core2 -c matrix_info.cpp -o matrix_info.o
C:/Rtools/mingw_32/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I"C:/local323/include" -O2 -Wall -mtune=core2 -c utils.cpp -o utils.o
utils.cpp: In function 'subset_info process_subset_vector(SEXP, const matrix_info&, bool)':
utils.cpp:20:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (sptr[s] < 0 || sptr[s] >= upper) {
^
utils.cpp: In instantiation of 'SEXPREC* rowsum_subset_internal(const T*, const matrix_info&, SEXP) [with T = int; SEXP = SEXPREC*]':
utils.cpp:106:65: required from here
utils.cpp:86:13: warning: unused variable 's' [-Wunused-variable]
int s;
^
utils.cpp: In instantiation of 'SEXPREC* rowsum_subset_internal(const T*, const matrix_info&, SEXP) [with T = double; SEXP = SEXPREC*]':
utils.cpp:108:68: required from here
utils.cpp:86:13: warning: unused variable 's' [-Wunused-variable]
utils.cpp: In instantiation of 'SEXPREC* calc_top_features_internal(const T*, const matrix_info&, SEXP, SEXP) [with T = int; SEXP = SEXPREC*]':
utils.cpp:336:74: required from here
utils.cpp:263:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (size_t t=1; t<ntop; ++t) {
^
utils.cpp:292:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=1; t<ntop; ++t) {
^
utils.cpp:303:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (r=0; r<itercycles; ++r) {
^
utils.cpp:313:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=0; t<ntop; ++t) {
^
utils.cpp: In instantiation of 'SEXPREC* calc_top_features_internal(const T*, const matrix_info&, SEXP, SEXP) [with T = double; SEXP = SEXPREC*]':
utils.cpp:338:77: required from here
utils.cpp:263:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (size_t t=1; t<ntop; ++t) {
^
utils.cpp:292:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=1; t<ntop; ++t) {
^
utils.cpp:303:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (r=0; r<itercycles; ++r) {
^
utils.cpp:313:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=0; t<ntop; ++t) {
^
C:/Rtools/mingw_32/bin/g++ -shared -s -static-libgcc -o scater.dll tmp.def calc_exprs.o init.o matrix_info.o utils.o -LC:/local323/lib/i386 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.5-bioc/meat/scater.buildbin-libdir/scater/libs/i386
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
Creating a new generic function for 'mutate' in package 'scater'
Creating a new generic function for 'filter' in package 'scater'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'scater' ...
** libs
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I"C:/local323/include" -O2 -Wall -mtune=core2 -c calc_exprs.cpp -o calc_exprs.o
calc_exprs.cpp: In instantiation of 'SEXPREC* calc_exprs_internal(const T*, const matrix_info&, SEXP, SEXP, SEXP, SEXP, SEXP) [with T = int; SEXP = SEXPREC*]':
calc_exprs.cpp:78:95: required from here
calc_exprs.cpp:5:46: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (!isReal(size_fac) || LENGTH(size_fac)!=MAT.ncol) {
^
calc_exprs.cpp: In instantiation of 'SEXPREC* calc_exprs_internal(const T*, const matrix_info&, SEXP, SEXP, SEXP, SEXP, SEXP) [with T = double; SEXP = SEXPREC*]':
calc_exprs.cpp:80:98: required from here
calc_exprs.cpp:5:46: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I"C:/local323/include" -O2 -Wall -mtune=core2 -c init.cpp -o init.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I"C:/local323/include" -O2 -Wall -mtune=core2 -c matrix_info.cpp -o matrix_info.o
C:/Rtools/mingw_64/bin/g++ -I"C:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/include" -DNDEBUG -I"C:/local323/include" -O2 -Wall -mtune=core2 -c utils.cpp -o utils.o
utils.cpp: In function 'subset_info process_subset_vector(SEXP, const matrix_info&, bool)':
utils.cpp:20:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (sptr[s] < 0 || sptr[s] >= upper) {
^
utils.cpp: In instantiation of 'SEXPREC* rowsum_subset_internal(const T*, const matrix_info&, SEXP) [with T = int; SEXP = SEXPREC*]':
utils.cpp:106:65: required from here
utils.cpp:86:13: warning: unused variable 's' [-Wunused-variable]
int s;
^
utils.cpp: In instantiation of 'SEXPREC* rowsum_subset_internal(const T*, const matrix_info&, SEXP) [with T = double; SEXP = SEXPREC*]':
utils.cpp:108:68: required from here
utils.cpp:86:13: warning: unused variable 's' [-Wunused-variable]
utils.cpp: In instantiation of 'SEXPREC* calc_top_features_internal(const T*, const matrix_info&, SEXP, SEXP) [with T = int; SEXP = SEXPREC*]':
utils.cpp:336:74: required from here
utils.cpp:263:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (size_t t=1; t<ntop; ++t) {
^
utils.cpp:292:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=1; t<ntop; ++t) {
^
utils.cpp:303:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (r=0; r<itercycles; ++r) {
^
utils.cpp:313:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=0; t<ntop; ++t) {
^
utils.cpp: In instantiation of 'SEXPREC* calc_top_features_internal(const T*, const matrix_info&, SEXP, SEXP) [with T = double; SEXP = SEXPREC*]':
utils.cpp:338:77: required from here
utils.cpp:263:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (size_t t=1; t<ntop; ++t) {
^
utils.cpp:292:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=1; t<ntop; ++t) {
^
utils.cpp:303:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (r=0; r<itercycles; ++r) {
^
utils.cpp:313:24: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=0; t<ntop; ++t) {
^
C:/Rtools/mingw_64/bin/g++ -shared -s -static-libgcc -o scater.dll tmp.def calc_exprs.o init.o matrix_info.o utils.o -LC:/local323/lib/x64 -LC:/local323/lib -LC:/Users/BIOCBU˜1/BBS-3˜1.5-B/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.5-bioc/meat/scater.buildbin-libdir/scater/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'scater' as scater_1.4.0.zip
* DONE (scater)
* installing to library 'C:/Users/biocbuild/bbs-3.5-bioc/R/library'
package 'scater' successfully unpacked and MD5 sums checked