Package: CAMERA

Version: 1.9.3

Command: mkdir CAMERA.buildbin-libdir && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=CAMERA.buildbin-libdir CAMERA_1.9.3.tar.gz >CAMERA-install.out 2>&1 && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --library=CAMERA.buildbin-libdir --install="check:CAMERA-install.out" --force-multiarch --no-vignettes --timings CAMERA_1.9.3.tar.gz && mv CAMERA.buildbin-libdir/* CAMERA.Rcheck/ && rmdir CAMERA.buildbin-libdir

StartedAt: 2011-07-07 04:26:24 -0700 (Thu, 07 Jul 2011)

EndedAt: 2011-07-07 04:31:01 -0700 (Thu, 07 Jul 2011)

EllapsedTime: 277.1 seconds

RetCode: 0

Status:  OK

CheckDir: CAMERA.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/CAMERA.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-20 r56188)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'CAMERA/DESCRIPTION' ... OK
* this is package 'CAMERA' version '1.9.3'
* checking package name space information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: Rmpi
* checking if this is a source package ... OK
* checking whether package 'CAMERA' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... NOTE
xsAnnotate: no visible global function definition for 'mpi.comm.size'
xsAnnotate: no visible global function definition for
  'mpi.spawn.Rslaves'
* 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 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 ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in tests ... NOTE
'library' or 'require' call not declared from: 'RUnit'
* checking tests ...
** running tests for arch 'i386'
  Running 'doRUnit.R'
 OK
** running tests for arch 'x64'
  Running 'doRUnit.R'
 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

install for i386

* installing *source* package 'CAMERA' ...
** libs
gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c fastMatch.c -o fastMatch.o
gcc -shared -s -static-libgcc -o CAMERA.dll tmp.def fastMatch.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/CAMERA.buildbin-libdir/CAMERA/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'CAMERA.Rnw' 
** testing if installed package can be loaded

add DLL for x64

* installing *source* package 'CAMERA' ...
** libs
x86_64-w64-mingw32-gcc  -I"D:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -std=gnu99 -mtune=core2 -c fastMatch.c -o fastMatch.o
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o CAMERA.dll tmp.def fastMatch.o -LD:/biocbld/BBS-2˜1.9-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.9-bioc/meat/CAMERA.buildbin-libdir/CAMERA/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'CAMERA' as CAMERA_1.9.3.zip

* DONE (CAMERA)

name	user	system	elapsed
annotate-methods	7.80	0.08	7.87
annotateDiffreport	14.05	0.34	14.40
calcCaS-methods	1.79	0.00	1.79
findAdducts-methods	9.79	0.02	9.85
findIsotopes-methods	0.98	0.00	1.03
findNeutralLoss	0.92	0.01	1.01
findNeutralLossSpecs	0.89	0.02	0.92
getAllPeakEICs-methods	2.37	0.03	2.40
getIsotopeCluster	6.60	0.20	6.82
getPeaklist-methods	9.86	0.00	9.92
getpspectra	0.95	0.00	0.95
groupCorr-methods	7.13	0.22	7.35
groupFWHM-methods	2.71	0.03	2.79
xsAnnotate	1.53	0.00	2.00