rama 1.27.0
Raphael Gottardo
| Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/rama | | Last Changed Rev: 54802 / Revision: 56603 | | Last Changed Date: 2011-04-13 15:36:43 -0700 (Wed, 13 Apr 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | [ OK ] | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | OK | OK |
| moscato1 | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | OK | OK |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
* using log directory ‘/loc/home/biocbuild/bbs-2.9-bioc/meat/rama.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-15 r56138)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘rama/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘rama’ version ‘1.27.0’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘rama’ can be installed ... OK
* checking installed package size ... 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 non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
prepare_Rd: is.row.na.Rd:40: Dropping empty section \keyword
prepare_Rd: ls.effect.Rd:38-39: Dropping empty section \details
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK
* installing *source* package ‘rama’ ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c estimation_slice.c -o estimation_slice.o
estimation_slice.c: In function ‘mcmc_shift’:
estimation_slice.c:122:10: warning: unused variable ‘SSeps_sd_new’
estimation_slice.c:121:10: warning: unused variable ‘SSeps_sd’
estimation_slice.c:117:10: warning: unused variable ‘pi’
estimation_slice.c:116:24: warning: unused variable ‘SS12’
estimation_slice.c:116:17: warning: unused variable ‘SSR2’
estimation_slice.c:116:10: warning: unused variable ‘SSR1’
estimation_slice.c:115:25: warning: unused variable ‘dens_epsilon_new’
estimation_slice.c:115:10: warning: unused variable ‘dens_epsilon’
estimation_slice.c:114:22: warning: unused variable ‘l_epsilon_new’
estimation_slice.c:114:10: warning: unused variable ‘l_epsilon’
estimation_slice.c:113:27: warning: unused variable ‘lambda_eps2_new’
estimation_slice.c:113:10: warning: unused variable ‘lambda_eps1_new’
estimation_slice.c: In function ‘slice_sampling_lambda_eps’:
estimation_slice.c:484:3: warning: suggest parentheses around comparison in operand of ‘&’
estimation_slice.c:493:3: warning: suggest parentheses around comparison in operand of ‘&’
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c ex_estimation_slice.c -o ex_estimation_slice.o
ex_estimation_slice.c: In function ‘mcmc’:
ex_estimation_slice.c:144:10: warning: unused variable ‘old_a’
ex_estimation_slice.c:143:10: warning: unused variable ‘old_b’
ex_estimation_slice.c:138:10: warning: unused variable ‘sum_res2’
ex_estimation_slice.c:137:10: warning: unused variable ‘sum_res1’
ex_estimation_slice.c:119:19: warning: unused variable ‘dens_t_new’
ex_estimation_slice.c:119:10: warning: unused variable ‘dens_t’
ex_estimation_slice.c:112:10: warning: unused variable ‘pi’
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c mean.sd.c -o mean.sd.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c reorder.c -o reorder.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.9-bioc/R/include -I/usr/local/include -fpic -g -O2 -Wall -c util.c -o util.o
util.c: In function ‘product_mat_vec’:
util.c:574:11: warning: unused variable ‘k’
util.c: In function ‘slice_sampling_a’:
util.c:629:3: warning: suggest parentheses around comparison in operand of ‘|’
util.c:629:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c:636:4: warning: suggest parentheses around comparison in operand of ‘&’
util.c:643:4: warning: suggest parentheses around comparison in operand of ‘&’
util.c:613:13: warning: unused variable ‘v’
util.c: In function ‘slice_sampling_b’:
util.c:703:3: warning: suggest parentheses around comparison in operand of ‘|’
util.c:703:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c:710:4: warning: suggest parentheses around comparison in operand of ‘&’
util.c:717:4: warning: suggest parentheses around comparison in operand of ‘&’
util.c:686:13: warning: unused variable ‘v’
util.c: In function ‘slice_sampling_b2’:
util.c:767:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c:775:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c: In function ‘slice_sampling_a2’:
util.c:822:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c:830:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c: In function ‘slice_sampling_rho’:
util.c:876:3: warning: suggest parentheses around comparison in operand of ‘|’
util.c:876:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c:883:4: warning: suggest parentheses around comparison in operand of ‘&’
util.c:890:4: warning: suggest parentheses around comparison in operand of ‘&’
util.c:860:13: warning: unused variable ‘v’
util.c: In function ‘slice_sampling_rho2’:
util.c:935:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c:944:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c: In function ‘slice_sampling_shift’:
util.c:1019:3: warning: suggest parentheses around comparison in operand of ‘|’
util.c:1019:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c:1026:4: warning: suggest parentheses around comparison in operand of ‘&’
util.c:1033:4: warning: suggest parentheses around comparison in operand of ‘&’
util.c:1000:13: warning: unused variable ‘v’
util.c: In function ‘slice_sampling_shift2’:
util.c:1100:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c:1108:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c:1082:13: warning: unused variable ‘v’
util.c: In function ‘slice_sampling_p’:
util.c:1248:3: warning: suggest parentheses around comparison in operand of ‘&’
util.c:1256:3: warning: suggest parentheses around comparison in operand of ‘&’
gcc -std=gnu99 -shared -L/usr/local/lib64 -o rama.so estimation_slice.o ex_estimation_slice.o mean.sd.o reorder.o util.o -L/home/biocbuild/bbs-2.9-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.9-bioc/meat/rama.Rcheck/rama/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
‘rama.Rnw’
** testing if installed package can be loaded
* DONE (rama)