Back to Multiple platform build/check report for BioC 3.11
ABCDEFGHIJKLMNOPQ[R]STUVWXYZ

INSTALL report for rqubic on tokay2

This page was generated on 2020-10-17 11:57:41 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE rqubic PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1535/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
rqubic 1.34.0
Jitao David Zhang
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/rqubic
Branch: RELEASE_3_11
Last Commit: 555a638
Last Changed Date: 2020-04-27 14:26:34 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64 [ OK ] OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
machv2 macOS 10.14.6 Mojave / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: rqubic
Version: 1.34.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/rqubic_1.34.0.tar.gz && rm -rf rqubic.buildbin-libdir && mkdir rqubic.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=rqubic.buildbin-libdir rqubic_1.34.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL rqubic_1.34.0.zip && rm rqubic_1.34.0.tar.gz rqubic_1.34.0.zip
StartedAt: 2020-10-16 17:16:55 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 17:17:57 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 61.6 seconds
RetCode: 0
Status:  OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/rqubic_1.34.0.tar.gz && rm -rf rqubic.buildbin-libdir && mkdir rqubic.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=rqubic.buildbin-libdir rqubic_1.34.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL rqubic_1.34.0.zip && rm rqubic_1.34.0.tar.gz rqubic_1.34.0.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
100 74283  100 74283    0     0  1143k      0 --:--:-- --:--:-- --:--:-- 1295k

install for i386

* installing *source* package 'rqubic' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c bicluster.c -o bicluster.o
bicluster.c: In function 'seed_intersect_r':
bicluster.c:354:11: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
       if (flag=ss) (*m_cnt)++;
           ^~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c discretize.c -o discretize.o
In file included from discretize.c:9:
rqubic.h:61:20: warning: 'MINCOL_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *MINCOL_ATT_NAME="minimumCol";
                    ^~~~~~~~~~~~~~~
rqubic.h:60:20: warning: 'EDGELIST_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *EDGELIST_ATT_NAME="edgelist";
                    ^~~~~~~~~~~~~~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fib.c -o fib.o
In file included from fib.c:35:
rqubic.h:61:20: warning: 'MINCOL_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *MINCOL_ATT_NAME="minimumCol";
                    ^~~~~~~~~~~~~~~
rqubic.h:60:20: warning: 'EDGELIST_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *EDGELIST_ATT_NAME="edgelist";
                    ^~~~~~~~~~~~~~~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c graph.c -o graph.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c rqubic.c -o rqubic.o
In file included from rqubic.c:5:
rqubic.h:61:20: warning: 'MINCOL_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *MINCOL_ATT_NAME="minimumCol";
                    ^~~~~~~~~~~~~~~
rqubic.h:60:20: warning: 'EDGELIST_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *EDGELIST_ATT_NAME="edgelist";
                    ^~~~~~~~~~~~~~~~~
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o rqubic.dll tmp.def bicluster.o discretize.o fib.o graph.o rqubic.o -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/rqubic.buildbin-libdir/00LOCK-rqubic/00new/rqubic/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'rqubic'
    finding HTML links ... done
    QUBICBiclusterSet-class                 html  
    finding level-2 HTML links ... done

    combineBiclusts-methods                 html  
    discretize                              html  
    eSetDimName                             html  
    fcFilter-methods                        html  
    fcFilter                                html  
    features-methods                        html  
    generateSeeds-methods                   html  
    parseQubicBlocks                        html  
    quBicluster                             html  
    readBiclusterResults                    html  
    rqubic-package                          html  
    writeQubicInputFile                     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 'rqubic' ...
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c bicluster.c -o bicluster.o
bicluster.c: In function 'seed_intersect_r':
bicluster.c:354:11: warning: suggest parentheses around assignment used as truth value [-Wparentheses]
       if (flag=ss) (*m_cnt)++;
           ^~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c discretize.c -o discretize.o
In file included from discretize.c:9:
rqubic.h:61:20: warning: 'MINCOL_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *MINCOL_ATT_NAME="minimumCol";
                    ^~~~~~~~~~~~~~~
rqubic.h:60:20: warning: 'EDGELIST_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *EDGELIST_ATT_NAME="edgelist";
                    ^~~~~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c fib.c -o fib.o
In file included from fib.c:35:
rqubic.h:61:20: warning: 'MINCOL_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *MINCOL_ATT_NAME="minimumCol";
                    ^~~~~~~~~~~~~~~
rqubic.h:60:20: warning: 'EDGELIST_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *EDGELIST_ATT_NAME="edgelist";
                    ^~~~~~~~~~~~~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c graph.c -o graph.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c rqubic.c -o rqubic.o
In file included from rqubic.c:5:
rqubic.h:61:20: warning: 'MINCOL_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *MINCOL_ATT_NAME="minimumCol";
                    ^~~~~~~~~~~~~~~
rqubic.h:60:20: warning: 'EDGELIST_ATT_NAME' defined but not used [-Wunused-variable]
 static const char *EDGELIST_ATT_NAME="edgelist";
                    ^~~~~~~~~~~~~~~~~
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o rqubic.dll tmp.def bicluster.o discretize.o fib.o graph.o rqubic.o -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/rqubic.buildbin-libdir/rqubic/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'rqubic' as rqubic_1.34.0.zip
* DONE (rqubic)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'rqubic' successfully unpacked and MD5 sums checked