netresponse 1.20.0
Leo Lahti
| Snapshot Date: 2015-10-26 19:24:07 -0400 (Mon, 26 Oct 2015) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_2/madman/Rpacks/netresponse | | Last Changed Rev: 109589 / Revision: 109947 | | Last Changed Date: 2015-10-13 15:36:05 -0400 (Tue, 13 Oct 2015) |
| linux1.bioconductor.org | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | [ OK ] | |  |
| windows1.bioconductor.org | Windows Server 2012 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | 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 | |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings netresponse_1.20.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.2-bioc/meat/netresponse.Rcheck’
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘netresponse/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘netresponse’ version ‘1.20.0’
* 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 ‘netresponse’ can be installed ... [7s/7s] OK
* checking installed package size ... OK
* checking package 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
plot.responses: no visible global function definition for ‘qplot’
* 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 compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... NOTE
File ‘netresponse/libs/netresponse.so’:
Found ‘rand’, possibly from ‘rand’ (C)
Object: ‘netresponse.o’
Found ‘srand’, possibly from ‘srand’ (C)
Object: ‘netresponse.o’
Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor the system RNG.
See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
* checking files in ‘vignettes’ ... NOTE
The following directory looks like a leftover from 'knitr':
‘figure’
Please remove from your package.
* checking examples ... [62s/62s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
ICMg.combined.sampler 44.003 0.023 44.063
detect.responses 7.212 0.024 7.242
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘ICMg.test.R’ [11s/11s]
Running ‘bicmixture.R’ [3s/3s]
Running ‘mixture.model.test.R’ [4s/4s]
Running ‘mixture.model.test.multimodal.R’ [5s/5s]
Running ‘mixture.model.test.singlemode.R’ [3s/3s]
Running ‘timing.R’ [0s/0s]
Running ‘toydata2.R’ [0s/0s]
Running ‘validate.netresponse.R’ [71s/71s]
Running ‘validate.pca.basis.R’ [51s/51s]
Running ‘vdpmixture.R’ [3s/3s]
[151s/151s] OK
* checking PDF version of manual ... OK
* DONE
Status: 3 NOTEs
See
‘/home/biocbuild/bbs-3.2-bioc/meat/netresponse.Rcheck/00check.log’
for details.
* installing *source* package ‘netresponse’ ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-3.2-bioc/R/include -DNDEBUG -I/usr/local/include -fpic -g -O2 -Wall -c netresponse.c -o netresponse.o
netresponse.c: In function ‘mHPpost’:
netresponse.c:264:15: warning: unused variable ‘prior_fields’ [-Wunused-variable]
const char *prior_fields[]={"Mumu","S2mu",
^
netresponse.c: In function ‘mLogLambda’:
netresponse.c:713:20: warning: ‘U_p’ may be used uninitialized in this function [-Wmaybe-uninitialized]
vdp_mk_log_lambda(Mumu, S2mu, Mubar, Mutilde,
^
netresponse.c:713:20: warning: ‘KsiBeta’ may be used uninitialized in this function [-Wmaybe-uninitialized]
netresponse.c:713:20: warning: ‘KsiAlpha’ may be used uninitialized in this function [-Wmaybe-uninitialized]
netresponse.c:713:20: warning: ‘BetaKsi’ may be used uninitialized in this function [-Wmaybe-uninitialized]
netresponse.c:713:20: warning: ‘AlphaKsi’ may be used uninitialized in this function [-Wmaybe-uninitialized]
netresponse.c:713:20: warning: ‘Mutilde’ may be used uninitialized in this function [-Wmaybe-uninitialized]
netresponse.c:713:20: warning: ‘Mubar’ may be used uninitialized in this function [-Wmaybe-uninitialized]
netresponse.c:713:20: warning: ‘S2mu’ may be used uninitialized in this function [-Wmaybe-uninitialized]
netresponse.c:713:20: warning: ‘Mumu’ may be used uninitialized in this function [-Wmaybe-uninitialized]
gcc -std=gnu99 -shared -L/home/biocbuild/bbs-3.2-bioc/R/lib -L/usr/local/lib -o netresponse.so netresponse.o -L/home/biocbuild/bbs-3.2-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.2-bioc/meat/netresponse.Rcheck/netresponse/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (netresponse)