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Package 222/294HostnameOS / ArchBUILDCHECKBUILD BIN
rama 1.16.0
Raphael Gottardo
Bioconductor Changelog
Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/rama
Last Changed Rev: 34811 / Revision: 38965
Last Changed Date: 2008-10-21 15:32:58 -0700 (Tue, 21 Oct 2008)
wilson2 Linux (openSUSE 11.1) / x86_64  OK [ OK ]
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
pitt Mac OS X Tiger (10.4.11) / i386  OK  OK  OK 
pelham Mac OS X Leopard (10.5.6) / i386  OK  OK  OK 
Package: rama
Version: 1.16.0
Command: /home/biocbuild/bbs-2.3-bioc/R/bin/R CMD check --no-vignettes rama_1.16.0.tar.gz
StartedAt: 2009-04-18 16:24:02 -0700 (Sat, 18 Apr 2009)
EndedAt: 2009-04-18 16:24:23 -0700 (Sat, 18 Apr 2009)
EllapsedTime: 20.5 seconds
RetCode: 0
Status: OK
CheckDir: rama.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.3-bioc/meat/rama.Rcheck'
* using R version 2.8.1 (2008-12-22)
* using session charset: UTF-8
* checking for file 'rama/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'rama' version '1.16.0'
* 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 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 name space can be loaded with stated dependencies ... 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 ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating rama-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating rama-manual.tex ... OK
* checking rama-manual.tex using pdflatex ... OK

rama.Rcheck/00install.out:

* Installing *source* package 'rama' ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-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: warning: unused variable ‘SSeps_sd_new’
estimation_slice.c:121: warning: unused variable ‘SSeps_sd’
estimation_slice.c:117: warning: unused variable ‘pi’
estimation_slice.c:116: warning: unused variable ‘SS12’
estimation_slice.c:116: warning: unused variable ‘SSR2’
estimation_slice.c:116: warning: unused variable ‘SSR1’
estimation_slice.c:115: warning: unused variable ‘dens_epsilon_new’
estimation_slice.c:115: warning: unused variable ‘dens_epsilon’
estimation_slice.c:114: warning: unused variable ‘l_epsilon_new’
estimation_slice.c:114: warning: unused variable ‘l_epsilon’
estimation_slice.c:113: warning: unused variable ‘lambda_eps2_new’
estimation_slice.c:113: warning: unused variable ‘lambda_eps1_new’
estimation_slice.c: In function ‘slice_sampling_lambda_eps’:
estimation_slice.c:484: warning: suggest parentheses around comparison in operand of &
estimation_slice.c:493: warning: suggest parentheses around comparison in operand of &
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-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: warning: unused variable ‘old_a’
ex_estimation_slice.c:143: warning: unused variable ‘old_b’
ex_estimation_slice.c:138: warning: unused variable ‘sum_res2’
ex_estimation_slice.c:137: warning: unused variable ‘sum_res1’
ex_estimation_slice.c:119: warning: unused variable ‘dens_t_new’
ex_estimation_slice.c:119: warning: unused variable ‘dens_t’
ex_estimation_slice.c:112: warning: unused variable ‘pi’
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-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-2.3-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c reorder.c -o reorder.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.3-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: warning: unused variable ‘k’
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-2.3-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
** help
 >>> Building/Updating help pages for package 'rama'
     Formats: text html latex example 
  arrange.row                       text    html    latex   example
  est.shift                         text    html    latex   example
  fit.model                         text    html    latex   example
  hiv                               text    html    latex
Note: ignoring empty \keyword entries in file 'is.row.na.Rd'
  is.row.na                         text    html    latex   example
Note: removing empty section \details in file 'ls.effect.Rd'
  ls.effect                         text    html    latex   example
  mat.mean                          text    html    latex   example
  ratio.plot                        text    html    latex   example
  weight.plot                       text    html    latex   example
** building package indices ...
* DONE (rama)