Davis McCarthy
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022) |
| git_url: https://git.bioconductor.org/packages/slalom |
| git_branch: RELEASE_3_14 |
| git_last_commit: 140fa92 |
| git_last_commit_date: 2021-10-26 12:38:55 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:07:22 -0400 (Wed, 13 Apr 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
| tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
| machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
|
To the developers/maintainers of the slalom package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/slalom.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1816/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| slalom 1.16.0 (landing page) Davis McCarthy
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: slalom |
| Version: 1.16.0 |
| Command: C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/slalom_1.16.0.tar.gz && rm -rf slalom.buildbin-libdir && mkdir slalom.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=slalom.buildbin-libdir slalom_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL slalom_1.16.0.zip && rm slalom_1.16.0.tar.gz slalom_1.16.0.zip |
| StartedAt: 2022-04-12 05:57:55 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 06:00:28 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 153.0 seconds |
| RetCode: 0 |
| Status: OK |
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### Running command:
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### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/slalom_1.16.0.tar.gz && rm -rf slalom.buildbin-libdir && mkdir slalom.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=slalom.buildbin-libdir slalom_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL slalom_1.16.0.zip && rm slalom_1.16.0.tar.gz slalom_1.16.0.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
2 17.1M 2 421k 0 0 588k 0 0:00:29 --:--:-- 0:00:29 588k
9 17.1M 9 1745k 0 0 1034k 0 0:00:16 0:00:01 0:00:15 1035k
22 17.1M 22 4022k 0 0 1495k 0 0:00:11 0:00:02 0:00:09 1495k
41 17.1M 41 7246k 0 0 1959k 0 0:00:08 0:00:03 0:00:05 1959k
64 17.1M 64 10.9M 0 0 2390k 0 0:00:07 0:00:04 0:00:03 2390k
90 17.1M 90 15.5M 0 0 2798k 0 0:00:06 0:00:05 0:00:01 3115k
100 17.1M 100 17.1M 0 0 2946k 0 0:00:05 0:00:05 --:--:-- 3700k
install for i386
* installing *source* package 'slalom' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I"C:/extsoft/include" -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-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c slalom-classes.cpp -o slalom-classes.o
In file included from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/lexical_cast.hpp:30,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/tools/lexical_cast.hpp:12,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/tools/convert_from_string.hpp:14,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/constants/constants.hpp:14,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/special_functions/digamma.hpp:20,
from slalom-classes.cpp:20:
C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
slalom-classes.cpp: In member function 'void SlalomModel::train()':
slalom-classes.cpp:223:20: warning: unused variable 'meanerr' [-Wunused-variable]
double meanerr = arma::mean(error);
^~~~~~~
slalom-classes.cpp:202:12: warning: unused variable 'meanerr' [-Wunused-variable]
double meanerr = arma::mean(error);
^~~~~~~
slalom-classes.cpp: In member function 'void SlalomModel::updateEpsilon()':
slalom-classes.cpp:431:23: warning: comparison of integer expressions of different signedness: 'int' and 'const uword' {aka 'const unsigned int'} [-Wsign-compare]
for (int i = 0; i < this->epsilon_E1.n_elem; i++) {
~~^~~~~~~~~~~~~~~~~~~~~~~~~
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o slalom.dll tmp.def RcppExports.o slalom-classes.o -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/slalom.buildbin-libdir/00LOCK-slalom/00new/slalom/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 'slalom'
finding HTML links ... done
Rcpp_SlalomModel html
SlalomModel html
addResultsToSingleCellExperiment html
initSlalom html
mesc html
newSlalomModel html
plotLoadings html
plotRelevance html
plotTerms html
slalom html
topTerms html
trainSlalom html
updateSlalom 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 'slalom' ...
** libs
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11 -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I"C:/extsoft/include" -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-3~1.14-/R/include" -DNDEBUG -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/Rcpp/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/RcppArmadillo/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I"C:/extsoft/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c slalom-classes.cpp -o slalom-classes.o
In file included from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/aux_/na_assert.hpp:23,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/arg.hpp:25,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/placeholders.hpp:24,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/iterator/iterator_categories.hpp:16,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/iterator/iterator_facade.hpp:13,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/range/iterator_range_core.hpp:27,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/lexical_cast.hpp:30,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/tools/lexical_cast.hpp:12,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/tools/convert_from_string.hpp:14,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/constants/constants.hpp:14,
from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/special_functions/digamma.hpp:20,
from slalom-classes.cpp:20:
C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/assert.hpp:194:21: warning: unnecessary parentheses in declaration of 'assert_arg' [-Wparentheses]
failed ************ (Pred::************
^
C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/assert.hpp:199:21: warning: unnecessary parentheses in declaration of 'assert_not_arg' [-Wparentheses]
failed ************ (boost::mpl::not_<Pred>::************
^
slalom-classes.cpp: In member function 'void SlalomModel::train()':
slalom-classes.cpp:223:20: warning: unused variable 'meanerr' [-Wunused-variable]
double meanerr = arma::mean(error);
^~~~~~~
slalom-classes.cpp:202:12: warning: unused variable 'meanerr' [-Wunused-variable]
double meanerr = arma::mean(error);
^~~~~~~
slalom-classes.cpp: In member function 'void SlalomModel::updateEpsilon()':
slalom-classes.cpp:431:23: warning: comparison of integer expressions of different signedness: 'int' and 'const uword' {aka 'const unsigned int'} [-Wsign-compare]
for (int i = 0; i < this->epsilon_E1.n_elem; i++) {
~~^~~~~~~~~~~~~~~~~~~~~~~~~
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o slalom.dll tmp.def RcppExports.o slalom-classes.o -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/meat/slalom.buildbin-libdir/slalom/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'slalom' as slalom_1.16.0.zip
* DONE (slalom)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'slalom' successfully unpacked and MD5 sums checked