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This page was generated on 2014-10-08 09:00:02 -0700 (Wed, 08 Oct 2014).
| Package 778/824 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||
| ternarynet 1.8.0 Matthew N. McCall
| zin2 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | NotNeeded | OK | OK | |||||
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | OK | OK | |||||
| petty | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | [ OK ] | OK | |||||
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | OK | OK |
| Package: ternarynet |
| Version: 1.8.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch ternarynet_1.8.0.tar.gz |
| StartedAt: 2014-10-08 00:25:34 -0700 (Wed, 08 Oct 2014) |
| EndedAt: 2014-10-08 00:28:22 -0700 (Wed, 08 Oct 2014) |
| EllapsedTime: 168.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ternarynet.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch ternarynet_1.8.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-2.14-bioc/meat/ternarynet.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ternarynet/DESCRIPTION’ ... OK
* this is package ‘ternarynet’ version ‘1.8.0’
* 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 for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘ternarynet’ can be installed ... [7s/7s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Package in Depends field not imported from: ‘methods’
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of the ‘Writing R Extensions’ manual.
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [116s/118s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
plotFit 11.918 0.022 12.097
plotTraces 11.881 0.019 12.104
plotPost 11.859 0.018 11.996
ternaryPost-class 11.685 0.015 11.724
predictAttractor 11.677 0.017 11.821
ternaryFit-class 11.586 0.015 11.669
tnetfit 11.364 0.021 11.415
tnetpost 11.320 0.018 11.373
graphPosterior 11.300 0.023 11.476
attractorSummary 10.738 0.020 10.791
* 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
NOTE: There was 1 note.
See
‘/Users/biocbuild/bbs-2.14-bioc/meat/ternarynet.Rcheck/00check.log’
for details.
ternarynet.Rcheck/00install.out:
* installing *source* package ‘ternarynet’ ... ** libs llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c tnetfit.cc -o tnetfit.o tnetfit.cc: In function ‘SEXPREC* tnetfit(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)’: tnetfit.cc:73: warning: unused variable ‘tempi’ llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c tnetfuncs.cc -o tnetfuncs.o tnetfuncs.cc: In function ‘double AttractorDistanceForced(int, int, int, int, double, int*, int*, int*, const double*, const int*)’: tnetfuncs.cc:469: warning: unused variable ‘tableWidth’ tnetfuncs.cc:477: warning: unused variable ‘ipause’ tnetfuncs.cc: In function ‘double initialTemp(double, int, int, int, int, int, double, double, double, int, const double*, int*, int*, int*, const double*, const int*)’: tnetfuncs.cc:567: warning: unused variable ‘ipause’ tnetfuncs.cc:571: warning: unused variable ‘i’ llvm-g++-4.2 -arch x86_64 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=core2 -g -O2 -Wall -c tnetpost.cc -o tnetpost.o tnetpost.cc: In function ‘SEXPREC* tnetpost(SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*, SEXPREC*)’: tnetpost.cc:25: warning: unused variable ‘ipause’ tnetpost.cc:27: warning: unused variable ‘m0fit’ tnetpost.cc:28: warning: unused variable ‘finalScore’ tnetpost.cc:30: warning: unused variable ‘l0’ tnetpost.cc:30: warning: unused variable ‘stage_count’ tnetpost.cc:30: warning: unused variable ‘tempi’ tnetpost.cc:30: warning: unused variable ‘jtrans’ tnetpost.cc:30: warning: unused variable ‘nTransition’ llvm-g++-4.2 -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o ternarynet.so tnetfit.o tnetfuncs.o tnetpost.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Users/biocbuild/bbs-2.14-bioc/meat/ternarynet.Rcheck/ternarynet/libs ** R ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (ternarynet)
ternarynet.Rcheck/ternarynet-Ex.timings:
| name | user | system | elapsed | |
| attractorSummary | 10.738 | 0.020 | 10.791 | |
| graphPosterior | 11.300 | 0.023 | 11.476 | |
| plotFit | 11.918 | 0.022 | 12.097 | |
| plotPost | 11.859 | 0.018 | 11.996 | |
| plotTraces | 11.881 | 0.019 | 12.104 | |
| predictAttractor | 11.677 | 0.017 | 11.821 | |
| simulateSteadyState | 0.007 | 0.001 | 0.009 | |
| ternaryFit-class | 11.586 | 0.015 | 11.669 | |
| ternaryFitParameters-class | 0.006 | 0.001 | 0.007 | |
| ternaryPost-class | 11.685 | 0.015 | 11.724 | |
| tnetfit | 11.364 | 0.021 | 11.415 | |
| tnetpost | 11.320 | 0.018 | 11.373 | |