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Package 596/609HostnameOS / ArchBUILDCHECKBUILD BIN
VegaMC 2.2.0
Sandro Morganella
Snapshot Date: 2013-03-24 16:21:20 -0700 (Sun, 24 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_11/madman/Rpacks/VegaMC
Last Changed Rev: 70050 / Revision: 74773
Last Changed Date: 2012-10-01 15:16:24 -0700 (Mon, 01 Oct 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK [ OK ]
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: VegaMC
Version: 2.2.0
Command: /home/biocbuild/bbs-2.11-bioc/R/bin/R CMD check --no-vignettes --timings VegaMC_2.2.0.tar.gz
StartedAt: 2013-03-25 05:28:42 -0700 (Mon, 25 Mar 2013)
EndedAt: 2013-03-25 05:31:35 -0700 (Mon, 25 Mar 2013)
EllapsedTime: 173.0 seconds
RetCode: 0
Status:  OK 
CheckDir: VegaMC.Rcheck
Warnings: 0

Command output

* using log directory ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/VegaMC.Rcheck’
* using R version 2.15.3 (2013-03-01)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘VegaMC/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘VegaMC’ version ‘2.2.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking whether package ‘VegaMC’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.6Mb
  sub-directories of 1Mb or more:
    example   4.9Mb
* 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 for left-over 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 namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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 ... OK
* 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 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 compiled code ... OK
* checking installed files from ‘inst/doc’ ... 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

NOTE: There was 1 note.
See
  ‘/loc/home/biocbuild/bbs-2.11-bioc/meat/VegaMC.Rcheck/00check.log’
for details.

VegaMC.Rcheck/00install.out:

* installing *source* package ‘VegaMC’ ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.11-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c run_vegaMC.c -o run_vegaMC.o
run_vegaMC.c: In function ‘read_params’:
run_vegaMC.c:618:18: warning: unused variable ‘brkt’ [-Wunused-variable]
run_vegaMC.c: In function ‘load_data’:
run_vegaMC.c:534:32: warning: ‘chr’ may be used uninitialized in this function [-Wuninitialized]
run_vegaMC.c:535:30: warning: ‘position’ may be used uninitialized in this function [-Wuninitialized]
run_vegaMC.c:564:14: warning: ‘first_probe’ may be used uninitialized in this function [-Wuninitialized]
run_vegaMC.c: In function ‘call_VegaMC’:
run_vegaMC.c:435:32: warning: ‘prev_seg’ may be used uninitialized in this function [-Wuninitialized]
run_vegaMC.c:461:29: warning: ‘first_seg’ may be used uninitialized in this function [-Wuninitialized]
gcc -std=gnu99 -I/home/biocbuild/bbs-2.11-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c sort_data.c -o sort_data.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.11-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c vegaMC.c -o vegaMC.o
vegaMC.c: In function ‘heap_delete’:
vegaMC.c:235:10: warning: variable ‘deleted’ set but not used [-Wunused-but-set-variable]
vegaMC.c: In function ‘init_trivial_segmentation’:
vegaMC.c:592:15: warning: variable ‘index’ set but not used [-Wunused-but-set-variable]
gcc -std=gnu99 -shared -L/usr/local/lib64 -o VegaMC.so run_vegaMC.o sort_data.o vegaMC.o -L/home/biocbuild/bbs-2.11-bioc/R/lib -lR
installing to /loc/home/biocbuild/bbs-2.11-bioc/meat/VegaMC.Rcheck/VegaMC/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘VegaMC.Rnw’ 
** testing if installed package can be loaded

* DONE (VegaMC)

VegaMC.Rcheck/VegaMC-Ex.timings:

nameusersystemelapsed
VegaMC-package0.1880.0240.255
sortData0.2800.0120.469
vegaMC-methods1.2400.0241.973