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This page was generated on 2021-11-29 15:05:33 -0500 (Mon, 29 Nov 2021).

INSTALL results for PCAtools on tokay2

To the developers/maintainers of the PCAtools package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/PCAtools.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1386/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PCAtools 2.6.0  (landing page)
Kevin Blighe
Snapshot Date: 2021-11-28 04:15:06 -0500 (Sun, 28 Nov 2021)
git_url: https://git.bioconductor.org/packages/PCAtools
git_branch: RELEASE_3_14
git_last_commit: 9c497b5
git_last_commit_date: 2021-10-26 12:48:53 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: PCAtools
Version: 2.6.0
Command: C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/PCAtools_2.6.0.tar.gz && rm -rf PCAtools.buildbin-libdir && mkdir PCAtools.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PCAtools.buildbin-libdir PCAtools_2.6.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL PCAtools_2.6.0.zip && rm PCAtools_2.6.0.tar.gz PCAtools_2.6.0.zip
StartedAt: 2021-11-28 07:34:35 -0500 (Sun, 28 Nov 2021)
EndedAt: 2021-11-28 07:36:37 -0500 (Sun, 28 Nov 2021)
EllapsedTime: 121.3 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/PCAtools_2.6.0.tar.gz && rm -rf PCAtools.buildbin-libdir && mkdir PCAtools.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=PCAtools.buildbin-libdir PCAtools_2.6.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL PCAtools_2.6.0.zip && rm PCAtools_2.6.0.tar.gz PCAtools_2.6.0.zip
###
##############################################################################
##############################################################################


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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
  6 5545k    6  336k    0     0  1281k      0  0:00:04 --:--:--  0:00:04 1283k
100 5545k  100 5545k    0     0  4607k      0  0:00:01  0:00:01 --:--:-- 4610k

install for i386

* installing *source* package 'PCAtools' ...
** 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/beachmat/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/dqrng/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/beachmat/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/dqrng/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c shuffle_matrix.cpp -o shuffle_matrix.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/mpl/apply.hpp:24,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/aux_/iter_apply.hpp:17,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/aux_/find_if_pred.hpp:14,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/find_if.hpp:17,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/find.hpp:17,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/aux_/contains_impl.hpp:20,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/contains.hpp:20,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/policies/policy.hpp:10,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/special_functions/math_fwd.hpp:29,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/special_functions/fpclassify.hpp:19,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/random/hyperexponential_distribution.hpp:22,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/random.hpp:69,
                 from shuffle_matrix.cpp:4:
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>::************
                     ^
C:/rtools40/mingw32/bin/g++ -shared -s -static-libgcc -o PCAtools.dll tmp.def RcppExports.o shuffle_matrix.o -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/PCAtools.buildbin-libdir/00LOCK-PCAtools/00new/PCAtools/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'PCAtools'
    finding HTML links ... done
    biplot                                  html  
    finding level-2 HTML links ... done

    chooseGavishDonoho                      html  
    chooseMarchenkoPastur                   html  
    eigencorplot                            html  
    findElbowPoint                          html  
    getComponents                           html  
    getLoadings                             html  
    getVars                                 html  
    pairsplot                               html  
    parallelPCA                             html  
    pca                                     html  
    plotloadings                            html  
    screeplot                               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 'PCAtools' ...
** 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/beachmat/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/dqrng/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/beachmat/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include' -I'C:/Users/biocbuild/bbs-3.14-bioc/R/library/dqrng/include'   -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c shuffle_matrix.cpp -o shuffle_matrix.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/mpl/apply.hpp:24,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/aux_/iter_apply.hpp:17,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/aux_/find_if_pred.hpp:14,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/find_if.hpp:17,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/find.hpp:17,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/aux_/contains_impl.hpp:20,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/mpl/contains.hpp:20,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/policies/policy.hpp:10,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/special_functions/math_fwd.hpp:29,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/math/special_functions/fpclassify.hpp:19,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/random/hyperexponential_distribution.hpp:22,
                 from C:/Users/biocbuild/bbs-3.14-bioc/R/library/BH/include/boost/random.hpp:69,
                 from shuffle_matrix.cpp:4:
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>::************
                     ^
C:/rtools40/mingw64/bin/g++ -shared -s -static-libgcc -o PCAtools.dll tmp.def RcppExports.o shuffle_matrix.o -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/PCAtools.buildbin-libdir/PCAtools/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'PCAtools' as PCAtools_2.6.0.zip
* DONE (PCAtools)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'PCAtools' successfully unpacked and MD5 sums checked