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### Running command:
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### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data snapCGH
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* checking for file ‘snapCGH/DESCRIPTION’ ... OK
* preparing ‘snapCGH’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
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* installing *source* package ‘snapCGH’ ...
** using staged installation
** libs
using C compiler: ‘gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’
gcc -I"/home/biocbuild/bbs-3.17-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]
26 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:26:23: warning: unused variable ‘temp2’ [-Wunused-variable]
26 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:26:10: warning: unused variable ‘denom’ [-Wunused-variable]
26 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c: In function ‘fr_three’:
optimizer.c:195:30: warning: unused variable ‘temp3’ [-Wunused-variable]
195 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:195:23: warning: unused variable ‘temp2’ [-Wunused-variable]
195 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:195:10: warning: unused variable ‘denom’ [-Wunused-variable]
195 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:194:69: warning: unused variable ‘alphahat’ [-Wunused-variable]
194 | 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]
413 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:413:23: warning: unused variable ‘temp2’ [-Wunused-variable]
413 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:413:10: warning: unused variable ‘denom’ [-Wunused-variable]
413 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:412:69: warning: unused variable ‘alphahat’ [-Wunused-variable]
412 | 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]
687 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:687:23: warning: unused variable ‘temp2’ [-Wunused-variable]
687 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:687:10: warning: unused variable ‘denom’ [-Wunused-variable]
687 | double denom, temp, temp2, temp3;
| ^~~~~
optimizer.c:686:69: warning: unused variable ‘alphahat’ [-Wunused-variable]
686 | 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-3.17-bioc/R/lib -L/usr/local/lib -o snapCGH.so optimizer.o -L/home/biocbuild/bbs-3.17-bioc/R/lib -lR
installing to /tmp/RtmpSbVH5G/Rinst230a6a7b43af1f/00LOCK-snapCGH/00new/snapCGH/libs
** R
** inst
** byte-compile and prepare package for lazy loading
Error: objects ‘rowSums’, ‘colSums’, ‘rowMeans’, ‘colMeans’ are not exported by 'namespace:BiocGenerics'
Execution halted
ERROR: lazy loading failed for package ‘snapCGH’
* removing ‘/tmp/RtmpSbVH5G/Rinst230a6a7b43af1f/snapCGH’
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ERROR: package installation failed