scater 1.1.14
Davis McCarthy
| Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/scater | | Last Changed Rev: 120896 / Revision: 121152 | | Last Changed Date: 2016-09-13 06:25:03 -0700 (Tue, 13 Sep 2016) |
| zin1 | Linux (Ubuntu 16.04 LTS) / x86_64 | OK | OK | OK | |  |
| moscato1 | Windows Server 2008 R2 Standard (64-bit) / x64 | [ OK ] | OK | OK | OK | |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### rm -rf scater.buildbin-libdir && mkdir scater.buildbin-libdir && C:\cygwin\bin\curl.exe -O http://zin1/BBS/3.4/bioc/src/contrib/scater_1.1.14.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --library=scater.buildbin-libdir --merge-multiarch scater_1.1.14.tar.gz && D:\biocbld\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL scater_1.1.14.zip && rm scater_1.1.14.tar.gz scater_1.1.14.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 4173k 100 4173k 0 0 71.3M 0 --:--:-- --:--:-- --:--:-- 76.9M
install for i386
* installing *source* package 'scater' ...
** libs
C:/Rtools/mingw_32/bin/g++ -I"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -mtune=core2 -c calc_cpm.cpp -o calc_cpm.o
calc_cpm.cpp: In instantiation of 'SEXPREC* calc_cpm_internal(const T*, const matrix_info&, SEXP, SEXP, SEXP) [with T = int; SEXP = SEXPREC*]':
calc_cpm.cpp:53:82: required from here
calc_cpm.cpp:5:48: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (!isReal(lib_sizes) || LENGTH(lib_sizes)!=MAT.ncol) {
^
calc_cpm.cpp:9:54: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (!isReal(prior_counts) || LENGTH(prior_counts)!=MAT.ncol) {
^
calc_cpm.cpp: In instantiation of 'SEXPREC* calc_cpm_internal(const T*, const matrix_info&, SEXP, SEXP, SEXP) [with T = double; SEXP = SEXPREC*]':
calc_cpm.cpp:55:85: required from here
calc_cpm.cpp:5:48: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (!isReal(lib_sizes) || LENGTH(lib_sizes)!=MAT.ncol) {
^
calc_cpm.cpp:9:54: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (!isReal(prior_counts) || LENGTH(prior_counts)!=MAT.ncol) {
^
C:/Rtools/mingw_32/bin/g++ -I"D:/biocbld/BBS-3˜1.4-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"D:/biocbld/BBS-3˜1.4-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"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -mtune=core2 -c utils.cpp -o utils.o
utils.cpp: In instantiation of 'SEXPREC* colsum_subset_internal(const T*, const matrix_info&, SEXP) [with T = int; SEXP = SEXPREC*]':
utils.cpp:56:65: required from here
utils.cpp:26:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (sptr[s] < 1 || sptr[s] > MAT.nrow) {
^
utils.cpp: In instantiation of 'SEXPREC* colsum_subset_internal(const T*, const matrix_info&, SEXP) [with T = double; SEXP = SEXPREC*]':
utils.cpp:58:68: required from here
utils.cpp:26:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
utils.cpp: In instantiation of 'SEXPREC* colsum_exprs_subset_internal(const T*, const matrix_info&, T, SEXP) [with T = int; SEXP = SEXPREC*]':
utils.cpp:109:93: required from here
utils.cpp:74:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (sptr[s] < 1 || sptr[s] > MAT.nrow) {
^
utils.cpp: In instantiation of 'SEXPREC* colsum_exprs_subset_internal(const T*, const matrix_info&, T, SEXP) [with T = double; SEXP = SEXPREC*]':
utils.cpp:114:93: required from here
utils.cpp:74:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
utils.cpp: In instantiation of 'SEXPREC* calc_top_features_internal(const T*, const matrix_info&, SEXP) [with T = int; SEXP = SEXPREC*]':
utils.cpp:277:66: required from here
utils.cpp:218:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (size_t t=1; t<ntop; ++t) {
^
utils.cpp:223:46: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (ntop && (tptr[0] < 1 || tptr[ntop-1] > MAT.nrow)) {
^
utils.cpp:234:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=1; t<ntop; ++t) {
^
utils.cpp:254:24: 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) [with T = double; SEXP = SEXPREC*]':
utils.cpp:279:69: required from here
utils.cpp:218:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (size_t t=1; t<ntop; ++t) {
^
utils.cpp:223:46: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (ntop && (tptr[0] < 1 || tptr[ntop-1] > MAT.nrow)) {
^
utils.cpp:234:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=1; t<ntop; ++t) {
^
utils.cpp:254:24: 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_cpm.o init.o matrix_info.o utils.o -Lc:/local323/lib/i386 -Lc:/local323/lib -LD:/biocbld/BBS-3˜1.4-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-3.4-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'
Creating a generic function for 'plot' from package 'graphics' 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"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -mtune=core2 -c calc_cpm.cpp -o calc_cpm.o
calc_cpm.cpp: In instantiation of 'SEXPREC* calc_cpm_internal(const T*, const matrix_info&, SEXP, SEXP, SEXP) [with T = int; SEXP = SEXPREC*]':
calc_cpm.cpp:53:82: required from here
calc_cpm.cpp:5:48: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (!isReal(lib_sizes) || LENGTH(lib_sizes)!=MAT.ncol) {
^
calc_cpm.cpp:9:54: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (!isReal(prior_counts) || LENGTH(prior_counts)!=MAT.ncol) {
^
calc_cpm.cpp: In instantiation of 'SEXPREC* calc_cpm_internal(const T*, const matrix_info&, SEXP, SEXP, SEXP) [with T = double; SEXP = SEXPREC*]':
calc_cpm.cpp:55:85: required from here
calc_cpm.cpp:5:48: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (!isReal(lib_sizes) || LENGTH(lib_sizes)!=MAT.ncol) {
^
calc_cpm.cpp:9:54: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (!isReal(prior_counts) || LENGTH(prior_counts)!=MAT.ncol) {
^
C:/Rtools/mingw_64/bin/g++ -I"D:/biocbld/BBS-3˜1.4-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"D:/biocbld/BBS-3˜1.4-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"D:/biocbld/BBS-3˜1.4-B/R/include" -DNDEBUG -I"c:/local323/include" -O2 -Wall -mtune=core2 -c utils.cpp -o utils.o
utils.cpp: In instantiation of 'SEXPREC* colsum_subset_internal(const T*, const matrix_info&, SEXP) [with T = int; SEXP = SEXPREC*]':
utils.cpp:56:65: required from here
utils.cpp:26:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (sptr[s] < 1 || sptr[s] > MAT.nrow) {
^
utils.cpp: In instantiation of 'SEXPREC* colsum_subset_internal(const T*, const matrix_info&, SEXP) [with T = double; SEXP = SEXPREC*]':
utils.cpp:58:68: required from here
utils.cpp:26:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
utils.cpp: In instantiation of 'SEXPREC* colsum_exprs_subset_internal(const T*, const matrix_info&, T, SEXP) [with T = int; SEXP = SEXPREC*]':
utils.cpp:109:93: required from here
utils.cpp:74:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (sptr[s] < 1 || sptr[s] > MAT.nrow) {
^
utils.cpp: In instantiation of 'SEXPREC* colsum_exprs_subset_internal(const T*, const matrix_info&, T, SEXP) [with T = double; SEXP = SEXPREC*]':
utils.cpp:114:93: required from here
utils.cpp:74:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
utils.cpp: In instantiation of 'SEXPREC* calc_top_features_internal(const T*, const matrix_info&, SEXP) [with T = int; SEXP = SEXPREC*]':
utils.cpp:277:66: required from here
utils.cpp:218:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (size_t t=1; t<ntop; ++t) {
^
utils.cpp:223:46: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (ntop && (tptr[0] < 1 || tptr[ntop-1] > MAT.nrow)) {
^
utils.cpp:234:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=1; t<ntop; ++t) {
^
utils.cpp:254:24: 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) [with T = double; SEXP = SEXPREC*]':
utils.cpp:279:69: required from here
utils.cpp:218:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (size_t t=1; t<ntop; ++t) {
^
utils.cpp:223:46: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if (ntop && (tptr[0] < 1 || tptr[ntop-1] > MAT.nrow)) {
^
utils.cpp:234:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (t=1; t<ntop; ++t) {
^
utils.cpp:254:24: 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_cpm.o init.o matrix_info.o utils.o -Lc:/local323/lib/x64 -Lc:/local323/lib -LD:/biocbld/BBS-3˜1.4-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-3.4-bioc/meat/scater.buildbin-libdir/scater/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'scater' as scater_1.1.14.zip
* DONE (scater)
* installing to library 'D:/biocbld/bbs-3.4-bioc/R/library'
package 'scater' successfully unpacked and MD5 sums checked