bridge 1.28.0
Raphael Gottardo
| Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/bridge | | Last Changed Rev: 88838 / Revision: 95116 | | Last Changed Date: 2014-04-11 14:07:21 -0700 (Fri, 11 Apr 2014) |
| zin2 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | NotNeeded | OK | OK | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | OK | OK |
| petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | OK | [ OK ] |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | OK | OK |
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### Running command:
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### rm -rf bridge.buildbin-libdir && mkdir bridge.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh bridge_1.28.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R bridge.buildbin-libdir
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>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=bridge.buildbin-libdir bridge_1.28.0.tar.gz'
>>>>>>>
* installing *source* package ‘bridge’ ...
** libs
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c bridge2.affy.c -o bridge2.affy.o
bridge2.affy.c: In function ‘gene_express_2s’:
bridge2.affy.c:37: warning: unused variable ‘count_model’
bridge2.affy.c:36: warning: unused variable ‘old_model’
bridge2.affy.c: In function ‘up_date_w2’:
bridge2.affy.c:302: warning: implicit declaration of function ‘dirichlet’
bridge2.affy.c:282: warning: unused variable ‘w_new’
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c bridge2.c -o bridge2.o
bridge2.c: In function ‘mcmc’:
bridge2.c:199: warning: unused variable ‘width_a’
bridge2.c:199: warning: unused variable ‘old_a’
bridge2.c:198: warning: unused variable ‘width_b’
bridge2.c:198: warning: unused variable ‘old_b’
bridge2.c:192: warning: unused variable ‘sum_res2’
bridge2.c:191: warning: unused variable ‘sum_res1’
bridge2.c:177: warning: unused variable ‘countp’
bridge2.c:175: warning: unused variable ‘countb_eps’
bridge2.c:174: warning: unused variable ‘counta_eps’
bridge2.c:173: warning: unused variable ‘counta’
bridge2.c:171: warning: unused variable ‘countrho’
bridge2.c:166: warning: unused variable ‘b_eps_new’
bridge2.c:166: warning: unused variable ‘a_eps_new’
bridge2.c:165: warning: unused variable ‘l_ab_new’
bridge2.c:165: warning: unused variable ‘l_ab’
bridge2.c:163: warning: unused variable ‘post_prec_eta’
bridge2.c:163: warning: unused variable ‘post_mean_eta’
bridge2.c:162: warning: unused variable ‘post_prec_delta’
bridge2.c:162: warning: unused variable ‘post_mean_delta’
bridge2.c:161: warning: unused variable ‘post_prec_alpha’
bridge2.c:161: warning: unused variable ‘post_mean_alpha’
bridge2.c:160: warning: unused variable ‘post_prec_beta’
bridge2.c:160: warning: unused variable ‘post_mean_beta’
bridge2.c:159: warning: unused variable ‘post_prec_mu’
bridge2.c:159: warning: unused variable ‘post_mean_mu’
bridge2.c:154: warning: unused variable ‘dens_t_new’
bridge2.c:154: warning: unused variable ‘dens_t’
bridge2.c:145: warning: unused variable ‘pi’
bridge2.c:143: warning: unused variable ‘dens_rho_new’
bridge2.c:143: warning: unused variable ‘dens_rho’
bridge2.c:142: warning: unused variable ‘sum_rho_new’
bridge2.c:142: warning: unused variable ‘sum_rho’
bridge2.c:138: warning: unused variable ‘rho_new’
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c bridge2_util.c -o bridge2_util.o
bridge2_util.c: In function ‘qr_solve’:
bridge2_util.c:570: warning: implicit declaration of function ‘dqrdc2_’
bridge2_util.c:585: warning: implicit declaration of function ‘dqrcf_’
bridge2_util.c:549: warning: unused variable ‘vmax’
bridge2_util.c: In function ‘inverse’:
bridge2_util.c:608: warning: unused variable ‘j’
bridge2_util.c: In function ‘product_mat_vec’:
bridge2_util.c:655: warning: unused variable ‘k’
bridge2_util.c: In function ‘slice_sampling_b’:
bridge2_util.c:763: warning: suggest parentheses around comparison in operand of &
bridge2_util.c:771: warning: suggest parentheses around comparison in operand of &
bridge2_util.c: In function ‘slice_sampling_a’:
bridge2_util.c:818: warning: suggest parentheses around comparison in operand of &
bridge2_util.c:826: warning: suggest parentheses around comparison in operand of &
bridge2_util.c: In function ‘slice_sampling_rho’:
bridge2_util.c:875: warning: suggest parentheses around comparison in operand of &
bridge2_util.c:884: warning: suggest parentheses around comparison in operand of &
bridge2_util.c: In function ‘slice_sampling_p’:
bridge2_util.c:961: warning: suggest parentheses around comparison in operand of &
bridge2_util.c:969: warning: suggest parentheses around comparison in operand of &
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c bridge3.c -o bridge3.o
bridge3.c: In function ‘gene_express_3s’:
bridge3.c:38: warning: unused variable ‘count_model’
bridge3.c:37: warning: unused variable ‘old_model’
bridge3.c: In function ‘gibbs_mu’:
bridge3.c:332: warning: suggest parentheses around comparison in operand of &
bridge3.c: In function ‘up_date_w’:
bridge3.c:362: warning: unused variable ‘w_new’
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o bridge.so bridge2.affy.o bridge2.o bridge2_util.o bridge3.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.14-bioc/meat/bridge.buildbin-libdir/bridge/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 (bridge)
>>>>>>>
>>>>>>> FIXING LINKS FOR bridge.buildbin-libdir/bridge/libs//bridge.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgcc_s.1.dylib" "bridge.buildbin-libdir/bridge/libs//bridge.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libgfortran.2.dylib" "bridge.buildbin-libdir/bridge/libs//bridge.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libreadline.5.2.dylib" "bridge.buildbin-libdir/bridge/libs//bridge.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.1/Resources/lib/libreadline.dylib" "bridge.buildbin-libdir/bridge/libs//bridge.so"