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INSTALL report for inveRsion on tokay2

This page was generated on 2020-10-17 11:56:53 -0400 (Sat, 17 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE inveRsion PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 888/1905HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
inveRsion 1.36.0
Alejandro Caceres
Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/inveRsion
Branch: RELEASE_3_11
Last Commit: 1c64f5c
Last Changed Date: 2020-04-27 14:24:34 -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: inveRsion
Version: 1.36.0
Command: C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/inveRsion_1.36.0.tar.gz && rm -rf inveRsion.buildbin-libdir && mkdir inveRsion.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=inveRsion.buildbin-libdir inveRsion_1.36.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL inveRsion_1.36.0.zip && rm inveRsion_1.36.0.tar.gz inveRsion_1.36.0.zip
StartedAt: 2020-10-16 17:40:56 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 17:41:57 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 61.1 seconds
RetCode: 0
Status:  OK  

Command output

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/inveRsion_1.36.0.tar.gz && rm -rf inveRsion.buildbin-libdir && mkdir inveRsion.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=inveRsion.buildbin-libdir inveRsion_1.36.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL inveRsion_1.36.0.zip && rm inveRsion_1.36.0.tar.gz inveRsion_1.36.0.zip
###
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install for i386

* installing *source* package 'inveRsion' ...
** 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 init_inveRsion.c -o init_inveRsion.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 inversionModel.c -o inversionModel.o
inversionModel.c: In function 'blockAndLev':
inversionModel.c:185:31: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
         if(dat[(*nr)*(c1)+row]==levelleft[level] & dat[(*nr)*(c2)+row]==levelright[level])
            ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
inversionModel.c: In function 'inversionModel':
inversionModel.c:360:15: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
    while(steps<*maxSteps & tol>mintol)
          ~~~~~^~~~~~~~~~
"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 writeGenoDat.c -o writeGenoDat.o
writeGenoDat.c: In function 'writeGenoDat':
writeGenoDat.c:34:16: warning: 'dat' may be used uninitialized in this function [-Wmaybe-uninitialized]
    int i,j,l,k,dat,nomiss[*numlevcaco],sum[*numlevcaco];
                ^~~
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o inveRsion.dll tmp.def init_inveRsion.o inversionModel.o writeGenoDat.o -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -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/inveRsion.buildbin-libdir/00LOCK-inveRsion/00new/inveRsion/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'inveRsion'
    finding HTML links ... done
    GenoDat-class                           html  
    GenoDatROI-class                        html  
    HaploCode-class                         html  
    ac                                      html  
    accBic                                  html  
    accuracy-class                          html  
    codeHaplo                               html  
    gDat                                    html  
    getClassif-methods                      html  
    getInv-methods                          html  
    getROIs-methods                         html  
    hapCode                                 html  
    invList                                 html  
    inveRsion-internal                      html  
    inveRsion-package                       html  
    inversion-class                         html  
    inversionList-class                     html  
    listInv-methods                         html  
    scan-class                              html  
    scanInv                                 html  
    scanRes                                 html  
    setUpGenoDatFile                        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 'inveRsion' ...
** 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 init_inveRsion.c -o init_inveRsion.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 inversionModel.c -o inversionModel.o
inversionModel.c: In function 'blockAndLev':
inversionModel.c:185:31: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
         if(dat[(*nr)*(c1)+row]==levelleft[level] & dat[(*nr)*(c2)+row]==levelright[level])
            ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
inversionModel.c: In function 'inversionModel':
inversionModel.c:360:15: warning: suggest parentheses around comparison in operand of '&' [-Wparentheses]
    while(steps<*maxSteps & tol>mintol)
          ~~~~~^~~~~~~~~~
"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 writeGenoDat.c -o writeGenoDat.o
writeGenoDat.c: In function 'writeGenoDat':
writeGenoDat.c:34:16: warning: 'dat' may be used uninitialized in this function [-Wmaybe-uninitialized]
    int i,j,l,k,dat,nomiss[*numlevcaco],sum[*numlevcaco];
                ^~~
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o inveRsion.dll tmp.def init_inveRsion.o inversionModel.o writeGenoDat.o -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -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/inveRsion.buildbin-libdir/inveRsion/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'inveRsion' as inveRsion_1.36.0.zip
* DONE (inveRsion)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'inveRsion' successfully unpacked and MD5 sums checked