Sergio Picart-Armada
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/diffuStats |
| Branch: RELEASE_3_11 |
| Last Commit: a8f7c98 |
| Last Changed Date: 2020-04-27 15:08:52 -0400 (Mon, 27 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:56:28 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE diffuStats PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 476/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| diffuStats 1.8.0 Sergio Picart-Armada
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | [ OK ] | OK | WARNINGS | OK | | ||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | |
| Package: diffuStats |
| Version: 1.8.0 |
| Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/diffuStats_1.8.0.tar.gz && rm -rf diffuStats.buildbin-libdir && mkdir diffuStats.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=diffuStats.buildbin-libdir diffuStats_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL diffuStats_1.8.0.zip && rm diffuStats_1.8.0.tar.gz diffuStats_1.8.0.zip |
| StartedAt: 2020-10-16 17:38:12 -0400 (Fri, 16 Oct 2020) |
| EndedAt: 2020-10-16 17:40:34 -0400 (Fri, 16 Oct 2020) |
| EllapsedTime: 142.7 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/diffuStats_1.8.0.tar.gz && rm -rf diffuStats.buildbin-libdir && mkdir diffuStats.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=diffuStats.buildbin-libdir diffuStats_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL diffuStats_1.8.0.zip && rm diffuStats_1.8.0.tar.gz diffuStats_1.8.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
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100 134k 100 134k 0 0 354k 0 --:--:-- --:--:-- --:--:-- 360k
install for i386
* installing *source* package 'diffuStats' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c diffuse_parallel.cpp -o diffuse_parallel.o
diffuse_parallel.cpp: In function 'arma::sp_mat convertSparse(Rcpp::S4)':
diffuse_parallel.cpp:28:84: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = double; arma::uword = unsigned int]' is deprecated [-Wdeprecated-declarations]
arma::access::rw(res.values) = arma::memory::acquire_chunked<double>(x.size() + 1);
^
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo:372,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:49,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from diffuse_parallel.cpp:1:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117:1: note: declared here
memory::acquire_chunked(const uword n_elem)
^~~~~~
diffuse_parallel.cpp:28:84: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = double; arma::uword = unsigned int]' is deprecated [-Wdeprecated-declarations]
arma::access::rw(res.values) = arma::memory::acquire_chunked<double>(x.size() + 1);
^
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo:372,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:49,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from diffuse_parallel.cpp:1:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117:1: note: declared here
memory::acquire_chunked(const uword n_elem)
^~~~~~
diffuse_parallel.cpp:32:94: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = unsigned int; arma::uword = unsigned int]' is deprecated [-Wdeprecated-declarations]
arma::access::rw(res.row_indices) = arma::memory::acquire_chunked<arma::uword>(i.size() + 1);
^
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo:372,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:49,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from diffuse_parallel.cpp:1:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117:1: note: declared here
memory::acquire_chunked(const uword n_elem)
^~~~~~
diffuse_parallel.cpp:32:94: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = unsigned int; arma::uword = unsigned int]' is deprecated [-Wdeprecated-declarations]
arma::access::rw(res.row_indices) = arma::memory::acquire_chunked<arma::uword>(i.size() + 1);
^
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo:372,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:49,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from diffuse_parallel.cpp:1:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117:1: note: declared here
memory::acquire_chunked(const uword n_elem)
^~~~~~
diffuse_parallel.cpp: In function 'arma::sp_mat sparsify2(const mat&, int, const sp_mat&)':
diffuse_parallel.cpp:69:21: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
for (int i = 0; i < pos.size(); ++i) {
~~^~~~~~~~~~~~
"C:/rtools40/mingw32/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c init.c -o init.o
C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o diffuStats.dll tmp.def RcppExports.o diffuse_parallel.o init.o -LC:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppParallel/lib/i386 -ltbb -ltbbmalloc -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/diffuStats.buildbin-libdir/00LOCK-diffuStats/00new/diffuStats/libs/i386
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'diffuStats'
finding HTML links ... done
ParallelHeatrank html
checks html
connect_undirected_graph html
convertSparse html
default_graph_param html
diffuStats html
diffuse html
diffuse_mc html
diffuse_raw html
generate_graph html
generate_input html
graph_toy html
is_kernel html
kernels html
largest_cc html
metric_auc html
named.list html
perf html
perf_eval html
perf_wilcox html
scores2colours html
scores2shapes html
serialHeatrank html
sparsify2 html
to_list html
to_x_from_list html
which_format html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'diffuStats' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -DRCPP_PARALLEL_USE_TBB=1 -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c diffuse_parallel.cpp -o diffuse_parallel.o
diffuse_parallel.cpp: In function 'arma::sp_mat convertSparse(Rcpp::S4)':
diffuse_parallel.cpp:28:84: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = double; arma::uword = unsigned int]' is deprecated [-Wdeprecated-declarations]
arma::access::rw(res.values) = arma::memory::acquire_chunked<double>(x.size() + 1);
^
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo:372,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:49,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from diffuse_parallel.cpp:1:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117:1: note: declared here
memory::acquire_chunked(const uword n_elem)
^~~~~~
diffuse_parallel.cpp:28:84: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = double; arma::uword = unsigned int]' is deprecated [-Wdeprecated-declarations]
arma::access::rw(res.values) = arma::memory::acquire_chunked<double>(x.size() + 1);
^
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo:372,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:49,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from diffuse_parallel.cpp:1:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117:1: note: declared here
memory::acquire_chunked(const uword n_elem)
^~~~~~
diffuse_parallel.cpp:32:94: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = unsigned int; arma::uword = unsigned int]' is deprecated [-Wdeprecated-declarations]
arma::access::rw(res.row_indices) = arma::memory::acquire_chunked<arma::uword>(i.size() + 1);
^
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo:372,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:49,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from diffuse_parallel.cpp:1:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117:1: note: declared here
memory::acquire_chunked(const uword n_elem)
^~~~~~
diffuse_parallel.cpp:32:94: warning: 'static eT* arma::memory::acquire_chunked(arma::uword) [with eT = unsigned int; arma::uword = unsigned int]' is deprecated [-Wdeprecated-declarations]
arma::access::rw(res.row_indices) = arma::memory::acquire_chunked<arma::uword>(i.size() + 1);
^
In file included from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo:372,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadilloForward.h:49,
from C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/RcppArmadillo.h:31,
from diffuse_parallel.cpp:1:
C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include/armadillo_bits/memory.hpp:117:1: note: declared here
memory::acquire_chunked(const uword n_elem)
^~~~~~
diffuse_parallel.cpp: In function 'arma::sp_mat sparsify2(const mat&, int, const sp_mat&)':
diffuse_parallel.cpp:69:21: warning: comparison of integer expressions of different signedness: 'int' and 'arma::uword' {aka 'unsigned int'} [-Wsign-compare]
for (int i = 0; i < pos.size(); ++i) {
~~^~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"gcc -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppParallel/include' -I"C:/extsoft/include" -O2 -Wall -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c init.c -o init.o
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o diffuStats.dll tmp.def RcppExports.o diffuse_parallel.o init.o -LC:/Users/biocbuild/bbs-3.11-bioc/R/library/RcppParallel/lib/x64 -ltbb -ltbbmalloc -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/diffuStats.buildbin-libdir/diffuStats/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'diffuStats' as diffuStats_1.8.0.zip
* DONE (diffuStats)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'diffuStats' successfully unpacked and MD5 sums checked