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Package 28/172OSArchBUILDCHECKBUILD BIN

bridge

1.4.0

Raphael Gottardo
Linux (SUSE 9.2) x86_64 OK [ OK ]
Linux (SUSE 9.2) i686 OK  OK 
Solaris 2.9 sparc OK  OK 
Linux (SUSE 10.0) x86_64 OK  OK 
Windows Server 2003 x86_64 OK  OK  OK 
Package: bridge
Version: 1.4.0
Command: /loc/biocbuild/1.8d/R/bin/R CMD check bridge_1.4.0.tar.gz
RetCode: 0
Time: 84.7 seconds
Status: OK
CheckDir: bridge.Rcheck
Warnings: 0

Command output

* checking for working latex ... OK
* using log directory '/loc/biocbuild/1.8d/Rpacks/bridge.Rcheck'
* using Version 2.3.1 (2006-06-01)
* checking for file 'bridge/DESCRIPTION' ... OK
* this is package 'bridge' version '1.4.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'bridge' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for syntax errors ... OK
* checking R files for library.dynam ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking Rd files ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking for CRLF line endings in C/C++/Fortran sources/headers ... OK
* creating bridge-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating bridge-manual.tex ... OK
* checking bridge-manual.tex ... OK

bridge.Rcheck/00install.out:

* Installing *source* package 'bridge' ...
** libs
gcc -I/loc/biocbuild/1.8d/R/include -I/loc/biocbuild/1.8d/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/1.8d/R/include -I/loc/biocbuild/1.8d/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/1.8d/R/include -I/loc/biocbuild/1.8d/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/1.8d/R/include -I/loc/biocbuild/1.8d/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)