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Package 411/472HostnameOS / ArchBUILDCHECKBUILD BIN
SamSPECTRAL 1.7.3
Habil Zare
Snapshot Date: 2011-06-21 19:21:48 -0700 (Tue, 21 Jun 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/SamSPECTRAL
Last Changed Rev: 56066 / Revision: 56351
Last Changed Date: 2011-06-08 15:07:12 -0700 (Wed, 08 Jun 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  TIMEOUT  skipped  skipped 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: SamSPECTRAL
Version: 1.7.3
Command: /Library/Frameworks/R.framework/Versions/2.14/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch SamSPECTRAL_1.7.3.tar.gz
StartedAt: 2011-06-22 05:16:57 -0700 (Wed, 22 Jun 2011)
EndedAt: 2011-06-22 05:17:20 -0700 (Wed, 22 Jun 2011)
EllapsedTime: 23.8 seconds
RetCode: 0
Status:  OK 
CheckDir: SamSPECTRAL.Rcheck
Warnings: 0

Command output

* using log directory ‘/Users/biocbuild/bbs-2.9-bioc/meat/SamSPECTRAL.Rcheck’
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56037)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SamSPECTRAL/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SamSPECTRAL’ version ‘1.7.3’
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package ‘SamSPECTRAL’ 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 ... 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 sizes of PDF files under ‘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

SamSPECTRAL.Rcheck/00install.out:

* installing *source* package ‘SamSPECTRAL’ ...
** libs
*** arch - i386
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic -c Rinit.c -o Rinit.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic -c conductance_computation.c -o conductance_computation.o
conductance_computation.c: In function ‘conductance_computation’:
conductance_computation.c:153: warning: unused variable ‘dj’
conductance_computation.c:153: warning: unused variable ‘di’
conductance_computation.c:152: warning: unused variable ‘memberLen’
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include -I/Library/Frameworks/R.framework/Versions/2.14/Resources/include/i386  -I/usr/local/include    -fPIC  -g -O2 -Wall -pedantic -c maximum_of_rows.c -o maximum_of_rows.o
gcc-4.2 -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o SamSPECTRAL.so Rinit.o conductance_computation.o maximum_of_rows.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.9-bioc/meat/SamSPECTRAL.Rcheck/SamSPECTRAL/libs/i386
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   ‘Clustering_by_SamSPECTRAL.Rnw’ 
** testing if installed package can be loaded

* DONE (SamSPECTRAL)

SamSPECTRAL.Rcheck/SamSPECTRAL-Ex.timings:

nameusersystemelapsed
Building_Communities0.0010.0000.000
Civilized_Spectral_Clustering0.0000.0000.001
Conductance_Calculation0.0010.0010.000
Connecting0.0000.0000.001
SamSPECTRAL-package0.0010.0010.000
SamSPECTRAL0.0000.0000.001
eigen.values.100.0320.0030.035
eigen.values.10000.0080.0010.009
small0.0390.0040.044
stmFSC0.3050.0250.333