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IMPORTANT NOTE: R was configured with --enable-strict-barrier on lamb1
Package 40/247HostnameOSArchBUILDCHECKBUILD BIN

bridge

1.9.0

Raphael Gottardo
Last Changed Date: 2007-04-24 11:31:42 -0700
Last Changed Rev: 24217
lamb1 Linux (SUSE 10.1) x86_64  OK  OK 
wellington Linux (SUSE 9.2) i686  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) x64  OK  OK  OK 
pitt Mac OS X (10.4.10) i386 [ OK ] OK  OK 
Package: bridge
Version: 1.9.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build bridge
RetCode: 0
Time: 33.5 seconds
Status: OK
PackageFile: bridge_1.9.0.tar.gz

Command output

* checking for file 'bridge/DESCRIPTION' ... OK
* preparing 'bridge':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
* Installing *source* package 'bridge' ...
** libs
** arch - i386
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3  -D__NO_MATH_INLINES  -fPIC  -g -O2 -Wall -std=gnu99 -march=nocona -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:300: warning: implicit declaration of function 'dirichlet'
bridge2.affy.c:280: warning: unused variable 'w_new'
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3  -D__NO_MATH_INLINES  -fPIC  -g -O2 -Wall -std=gnu99 -march=nocona -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'
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3  -D__NO_MATH_INLINES  -fPIC  -g -O2 -Wall -std=gnu99 -march=nocona -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 &
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3  -D__NO_MATH_INLINES  -fPIC  -g -O2 -Wall -std=gnu99 -march=nocona -c bridge3.c -o bridge3.o
bridge3.c: In function 'gene_express_3s':
bridge3.c:39: warning: unused variable 'count_model'
bridge3.c:38: warning: unused variable 'old_model'
bridge3.c: In function 'gibbs_mu':
bridge3.c:335: warning: suggest parentheses around comparison in operand of &
bridge3.c: In function 'up_date_w':
bridge3.c:365: warning: unused variable 'w_new'
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -dynamiclib -Wl,-macosx_version_min -Wl,10.3 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o bridge.so bridge2.affy.o bridge2.o bridge2_util.o bridge3.o   -F/Library/Frameworks/R.framework/.. -framework R
** arch - ppc
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -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:300: warning: implicit declaration of function 'dirichlet'
bridge2.affy.c:280: warning: unused variable 'w_new'
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -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'
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -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 &
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -Wall -c bridge3.c -o bridge3.o
bridge3.c: In function 'gene_express_3s':
bridge3.c:39: warning: unused variable 'count_model'
bridge3.c:38: warning: unused variable 'old_model'
bridge3.c: In function 'gibbs_mu':
bridge3.c:335: warning: suggest parentheses around comparison in operand of &
bridge3.c: In function 'up_date_w':
bridge3.c:365: warning: unused variable 'w_new'
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -dynamiclib -Wl,-macosx_version_min -Wl,10.3 -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o bridge.so bridge2.affy.o bridge2.o bridge2_util.o bridge3.o   -F/Library/Frameworks/R.framework/.. -framework R
** R
** data
** inst
** help
 >>> Building/Updating help pages for package 'bridge'
     Formats: text html latex example 
  bridge.2samples                   text    html    latex   example
  bridge.3samples                   text    html    latex   example
  hiv                               text    html    latex
** building package indices ...
* DONE (bridge)
* creating vignettes ... OK
* cleaning src
* removing junk files
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'bridge_1.9.0.tar.gz'