genoCN 1.12.0
Wei Sun
| Snapshot Date: 2013-04-30 17:01:37 -0700 (Tue, 30 Apr 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/genoCN | | Last Changed Rev: 75263 / Revision: 76155 | | Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 2013) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | OK | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK |
| petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | OK |
| pelham | Mac OS X Snow Leopard (10.6.8) / x86_64 | OK | OK | [ OK ] |
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=genoCN.buildbin-libdir genoCN_1.12.0.tar.gz'
>>>>>>>
* installing *source* package 'genoCN' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c tnorm_mle.c -o tnorm_mle.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c utility.c -o utility.o
utility.c:130:29: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
*m = (double **)R_alloc(nrow, sizeof(double*));
˜˜˜˜˜˜˜ ^˜˜˜
utility.c:207:11: warning: implicit conversion loses integer precision: 'long' to 'int' [-Wshorten-64-to-32]
for (i = nrl; i < nrh; i++){
˜ ^˜˜
utility.c:208:17: warning: implicit conversion loses integer precision: 'long' to 'int' [-Wshorten-64-to-32]
for(j = ncl; j < nch; j++){
˜ ^˜˜
utility.c:218:11: warning: implicit conversion loses integer precision: 'long' to 'int' [-Wshorten-64-to-32]
for (i = nrl; i < nrh; i++){
˜ ^˜˜
utility.c:219:17: warning: implicit conversion loses integer precision: 'long' to 'int' [-Wshorten-64-to-32]
for(j = ncl; j < nch; j++){
˜ ^˜˜
utility.c:229:11: warning: implicit conversion loses integer precision: 'long' to 'int' [-Wshorten-64-to-32]
for (i = nrl; i < nrh; i++){
˜ ^˜˜
utility.c:230:17: warning: implicit conversion loses integer precision: 'long' to 'int' [-Wshorten-64-to-32]
for(j = ncl; j < nch; j++){
˜ ^˜˜
7 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c xCNV.c -o xCNV.o
xCNV.c:317:16: warning: unused variable 'K' [-Wunused-variable]
int L, N, M, K, i, z, k, nGtp, contam=*contamR, CNA=*CNAR;
^
xCNV.c:317:25: warning: unused variable 'k' [-Wunused-variable]
int L, N, M, K, i, z, k, nGtp, contam=*contamR, CNA=*CNAR;
^
xCNV.c:787:20: warning: unused variable 'sd_b_tmp' [-Wunused-variable]
double mu_b_tmp, sd_b_tmp;
^
xCNV.c:787:10: warning: unused variable 'mu_b_tmp' [-Wunused-variable]
double mu_b_tmp, sd_b_tmp;
^
4 warnings generated.
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o genoCN.so tnorm_mle.o utility.o xCNV.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/genoCN.buildbin-libdir/genoCN/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (genoCN)
>>>>>>>
>>>>>>> FIXING LINKS FOR genoCN.buildbin-libdir/genoCN/libs//genoCN.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgcc_s.1.dylib" "genoCN.buildbin-libdir/genoCN/libs//genoCN.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "genoCN.buildbin-libdir/genoCN/libs//genoCN.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.5.2.dylib" "genoCN.buildbin-libdir/genoCN/libs//genoCN.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "genoCN.buildbin-libdir/genoCN/libs//genoCN.so"