Package: bridge

Version: 1.6.0

Command: /loc/biocbuild/1.9d/R/bin/R CMD build bridge

RetCode: 0

Time: 44.4 seconds

Status: OK

PackageFile: bridge_1.6.0.tar.gz

* 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
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include  -I/usr/local/include    -fpic  -g -O2 -std=gnu99 -Wall -c bridge2.affy.c -o bridge2.affy.o
bridge2.affy.c: In function `gene_express_2s':
bridge2.affy.c:36: warning: unused variable `old_model'
bridge2.affy.c:37: warning: unused variable `count_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 -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include  -I/usr/local/include    -fpic  -g -O2 -std=gnu99 -Wall -c bridge2.c -o bridge2.o
bridge2.c: In function `mcmc':
bridge2.c:138: warning: unused variable `rho_new'
bridge2.c:142: warning: unused variable `sum_rho'
bridge2.c:142: warning: unused variable `sum_rho_new'
bridge2.c:143: warning: unused variable `dens_rho'
bridge2.c:143: warning: unused variable `dens_rho_new'
bridge2.c:145: warning: unused variable `pi'
bridge2.c:154: warning: unused variable `dens_t'
bridge2.c:154: warning: unused variable `dens_t_new'
bridge2.c:159: warning: unused variable `post_mean_mu'
bridge2.c:159: warning: unused variable `post_prec_mu'
bridge2.c:160: warning: unused variable `post_mean_beta'
bridge2.c:160: warning: unused variable `post_prec_beta'
bridge2.c:161: warning: unused variable `post_mean_alpha'
bridge2.c:161: warning: unused variable `post_prec_alpha'
bridge2.c:162: warning: unused variable `post_mean_delta'
bridge2.c:162: warning: unused variable `post_prec_delta'
bridge2.c:163: warning: unused variable `post_mean_eta'
bridge2.c:163: warning: unused variable `post_prec_eta'
bridge2.c:165: warning: unused variable `l_ab'
bridge2.c:165: warning: unused variable `l_ab_new'
bridge2.c:166: warning: unused variable `a_eps_new'
bridge2.c:166: warning: unused variable `b_eps_new'
bridge2.c:171: warning: unused variable `countrho'
bridge2.c:173: warning: unused variable `counta'
bridge2.c:174: warning: unused variable `counta_eps'
bridge2.c:175: warning: unused variable `countb_eps'
bridge2.c:177: warning: unused variable `countp'
bridge2.c:191: warning: unused variable `sum_res1'
bridge2.c:192: warning: unused variable `sum_res2'
bridge2.c:198: warning: unused variable `old_b'
bridge2.c:198: warning: unused variable `width_b'
bridge2.c:199: warning: unused variable `old_a'
bridge2.c:199: warning: unused variable `width_a'
gcc -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include  -I/usr/local/include    -fpic  -g -O2 -std=gnu99 -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 -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include  -I/usr/local/include    -fpic  -g -O2 -std=gnu99 -Wall -c bridge3.c -o bridge3.o
bridge3.c: In function `gene_express_3s':
bridge3.c:38: warning: unused variable `old_model'
bridge3.c:39: warning: unused variable `count_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 -shared -L/usr/local/lib64 -o bridge.so bridge2.affy.o bridge2.o bridge2_util.o bridge3.o   
** 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 files
* checking for empty or unneeded directories
* building 'bridge_1.6.0.tar.gz'