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This page was generated on 2015-11-10 14:47:25 -0800 (Tue, 10 Nov 2015).
| Package 1049/1104 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | |||||
| ternarynet 1.14.0 Matthew N. McCall
| zin1 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK |  | |||||
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | [ OK ] | OK | | |||||
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | OK | OK | |
| Package: ternarynet |
| Version: 1.14.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings ternarynet_1.14.0.tar.gz |
| StartedAt: 2015-11-10 10:09:57 -0800 (Tue, 10 Nov 2015) |
| EndedAt: 2015-11-10 10:11:30 -0800 (Tue, 10 Nov 2015) |
| EllapsedTime: 93.0 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 ternarynet_1.14.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.2-bioc/meat/ternarynet.Rcheck’
* using R version 3.2.2 Patched (2015-10-08 r69496)
* 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 ‘1.14.0’
* 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 ... [4s/4s] 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.
* 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 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 ... [64s/64s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
plotFit 6.413 0.006 6.420
predictAttractor 6.412 0.002 6.414
tnetpost 6.388 0.001 6.389
tnetfit 6.322 0.002 6.323
plotPost 6.315 0.002 6.318
graphPosterior 6.301 0.001 6.302
plotTraces 6.288 0.002 6.291
ternaryPost-class 6.213 0.002 6.215
attractorSummary 6.193 0.002 6.195
ternaryFit-class 6.092 0.002 6.094
* 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
* DONE
Status: 1 NOTE
See
‘/Users/biocbuild/bbs-3.2-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:427: warning: unused variable ‘tableWidth’ tnetfuncs.cc:435: 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:517: warning: unused variable ‘ipause’ tnetfuncs.cc:521: 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/Library/Frameworks/R.framework/Resources/lib -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-3.2-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 | 6.193 | 0.002 | 6.195 | |
| graphPosterior | 6.301 | 0.001 | 6.302 | |
| plotFit | 6.413 | 0.006 | 6.420 | |
| plotPost | 6.315 | 0.002 | 6.318 | |
| plotTraces | 6.288 | 0.002 | 6.291 | |
| predictAttractor | 6.412 | 0.002 | 6.414 | |
| simulateSteadyState | 0.003 | 0.000 | 0.003 | |
| ternaryFit-class | 6.092 | 0.002 | 6.094 | |
| ternaryFitParameters-class | 0.004 | 0.001 | 0.004 | |
| ternaryPost-class | 6.213 | 0.002 | 6.215 | |
| tnetfit | 6.322 | 0.002 | 6.323 | |
| tnetpost | 6.388 | 0.001 | 6.389 | |