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INSTALL report for snapCGH on malbec2

This page was generated on 2019-10-16 11:55:54 -0400 (Wed, 16 Oct 2019).

Package 1547/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
snapCGH 1.54.0
John Marioni
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/snapCGH
Branch: RELEASE_3_9
Last Commit: 41a38a1
Last Changed Date: 2019-05-02 11:53:05 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64 [ OK ] OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: snapCGH
Version: 1.54.0
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL snapCGH
StartedAt: 2019-10-15 18:26:44 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 18:27:07 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 22.7 seconds
RetCode: 0
Status:  OK 

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL snapCGH
###
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘snapCGH’ ...
** using staged installation
** libs
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include  -fpic  -g -O2  -Wall -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];
                                                                     ^~~~~~~~
gcc -shared -L/home/biocbuild/bbs-3.9-bioc/R/lib -L/usr/local/lib -o snapCGH.so optimizer.o -L/home/biocbuild/bbs-3.9-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.9-bioc/R/library/00LOCK-snapCGH/00new/snapCGH/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Note: more than one default provided in switch() call 
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (snapCGH)