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This page was generated on 2022-01-21 13:07:08 -0500 (Fri, 21 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4079
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4140
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

BUILD BIN results for snapCGH on tokay2


To the developers/maintainers of the snapCGH package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/snapCGH.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 1825/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
snapCGH 1.64.0  (landing page)
John Marioni
Snapshot Date: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 2022)
git_url: https://git.bioconductor.org/packages/snapCGH
git_branch: RELEASE_3_14
git_last_commit: dc77b07
git_last_commit_date: 2021-10-26 11:49:07 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 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: snapCGH
Version: 1.64.0
Command: rm -rf snapCGH.buildbin-libdir && mkdir snapCGH.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=snapCGH.buildbin-libdir snapCGH_1.64.0.tar.gz
StartedAt: 2022-01-21 07:09:13 -0500 (Fri, 21 Jan 2022)
EndedAt: 2022-01-21 07:09:58 -0500 (Fri, 21 Jan 2022)
EllapsedTime: 45.6 seconds
RetCode: 0
Status:   OK  
PackageFile: snapCGH_1.64.0.zip
PackageFileSize: 1.413 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf snapCGH.buildbin-libdir && mkdir snapCGH.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=snapCGH.buildbin-libdir snapCGH_1.64.0.tar.gz
###
##############################################################################
##############################################################################



install for i386

* installing *source* package 'snapCGH' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c optimizer.c -o optimizer.o
optimizer.c: In function 'fr_two':
optimizer.c:26:30: warning: unused variable 'temp3' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                              ^~~~~
optimizer.c:26:23: warning: unused variable 'temp2' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                       ^~~~~
optimizer.c:26:10: warning: unused variable 'denom' [-Wunused-variable]
   double denom, temp, temp2, temp3;
          ^~~~~
optimizer.c: In function 'fr_three':
optimizer.c:195:30: warning: unused variable 'temp3' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                              ^~~~~
optimizer.c:195:23: warning: unused variable 'temp2' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                       ^~~~~
optimizer.c:195:10: warning: unused variable 'denom' [-Wunused-variable]
   double denom, temp, temp2, temp3;
          ^~~~~
optimizer.c:194:69: warning: unused variable 'alphahat' [-Wunused-variable]
   double gammaA[3][3], gammaB[3][3], gammaC[3][3], alpha[3][nrow1], alphahat[3][nrow1], emis_prob[3][nrow1];
                                                                     ^~~~~~~~
optimizer.c: In function 'fr_four':
optimizer.c:413:30: warning: unused variable 'temp3' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                              ^~~~~
optimizer.c:413:23: warning: unused variable 'temp2' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                       ^~~~~
optimizer.c:413:10: warning: unused variable 'denom' [-Wunused-variable]
   double denom, temp, temp2, temp3;
          ^~~~~
optimizer.c:412:69: warning: unused variable 'alphahat' [-Wunused-variable]
   double gammaA[4][4], gammaB[4][4], gammaC[4][4], alpha[4][nrow1], alphahat[4][nrow1], emis_prob[4][nrow1];
                                                                     ^~~~~~~~
optimizer.c: In function 'fr_five':
optimizer.c:687:30: warning: unused variable 'temp3' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                              ^~~~~
optimizer.c:687:23: warning: unused variable 'temp2' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                       ^~~~~
optimizer.c:687:10: warning: unused variable 'denom' [-Wunused-variable]
   double denom, temp, temp2, temp3;
          ^~~~~
optimizer.c:686:69: warning: unused variable 'alphahat' [-Wunused-variable]
   double gammaA[5][5], gammaB[5][5], gammaC[5][5], alpha[5][nrow1], alphahat[5][nrow1], emis_prob[5][nrow1];
                                                                     ^~~~~~~~
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o snapCGH.dll tmp.def optimizer.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/snapCGH.buildbin-libdir/00LOCK-snapCGH/00new/snapCGH/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'snapCGH'
    finding HTML links ... done
    IDProbes                                html  
    LargeDataObject                         html  
    SegList                                 html  
    Viterbi.five                            html  
    Viterbi.four                            html  
    Viterbi.three                           html  
    Viterbi.two                             html  
    cbind                                   html  
    chrominfo.Mb                            html  
    compareSegmentations                    html  
    convert.output                          html  
    dim                                     html  
    dimnames                                html  
    filter                                  html  
    find.param.five                         html  
    find.param.four                         html  
    find.param.one                          html  
    find.param.three                        html  
    find.param.two                          html  
    findBreakPoints                         html  
    fit.model                               html  
    genomePlot                              html  
    heatmapGenome                           html  
    imputeMissingValues                     html  
    log2ratios                              html  
    mergeStates                             html  
    plotSegmentedGenome                     html  
    processCGH                              html  
    read.clonesinfo                         html  
    readPositionalInfo                      html  
    removeByWeights                         html  
    runBioHMM                               html  
    runDNAcopy                              html  
    runGLAD                                 html  
    runHMM                                  html  
    runTilingArray                          html  
    sim.structure                           html  
    zoomChromosome                          html  
    zoomGenome                              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 'snapCGH' ...
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c optimizer.c -o optimizer.o
optimizer.c: In function 'fr_two':
optimizer.c:26:30: warning: unused variable 'temp3' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                              ^~~~~
optimizer.c:26:23: warning: unused variable 'temp2' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                       ^~~~~
optimizer.c:26:10: warning: unused variable 'denom' [-Wunused-variable]
   double denom, temp, temp2, temp3;
          ^~~~~
optimizer.c: In function 'fr_three':
optimizer.c:195:30: warning: unused variable 'temp3' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                              ^~~~~
optimizer.c:195:23: warning: unused variable 'temp2' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                       ^~~~~
optimizer.c:195:10: warning: unused variable 'denom' [-Wunused-variable]
   double denom, temp, temp2, temp3;
          ^~~~~
optimizer.c:194:69: warning: unused variable 'alphahat' [-Wunused-variable]
   double gammaA[3][3], gammaB[3][3], gammaC[3][3], alpha[3][nrow1], alphahat[3][nrow1], emis_prob[3][nrow1];
                                                                     ^~~~~~~~
optimizer.c: In function 'fr_four':
optimizer.c:413:30: warning: unused variable 'temp3' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                              ^~~~~
optimizer.c:413:23: warning: unused variable 'temp2' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                       ^~~~~
optimizer.c:413:10: warning: unused variable 'denom' [-Wunused-variable]
   double denom, temp, temp2, temp3;
          ^~~~~
optimizer.c:412:69: warning: unused variable 'alphahat' [-Wunused-variable]
   double gammaA[4][4], gammaB[4][4], gammaC[4][4], alpha[4][nrow1], alphahat[4][nrow1], emis_prob[4][nrow1];
                                                                     ^~~~~~~~
optimizer.c: In function 'fr_five':
optimizer.c:687:30: warning: unused variable 'temp3' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                              ^~~~~
optimizer.c:687:23: warning: unused variable 'temp2' [-Wunused-variable]
   double denom, temp, temp2, temp3;
                       ^~~~~
optimizer.c:687:10: warning: unused variable 'denom' [-Wunused-variable]
   double denom, temp, temp2, temp3;
          ^~~~~
optimizer.c:686:69: warning: unused variable 'alphahat' [-Wunused-variable]
   double gammaA[5][5], gammaB[5][5], gammaC[5][5], alpha[5][nrow1], alphahat[5][nrow1], emis_prob[5][nrow1];
                                                                     ^~~~~~~~
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o snapCGH.dll tmp.def optimizer.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/snapCGH.buildbin-libdir/snapCGH/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'snapCGH' as snapCGH_1.64.0.zip
* DONE (snapCGH)