Package: hopach

Version: 2.40.0

Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:hopach.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings hopach_2.40.0.tar.gz

StartedAt: 2018-10-16 01:10:33 -0400 (Tue, 16 Oct 2018)

EndedAt: 2018-10-16 01:11:30 -0400 (Tue, 16 Oct 2018)

EllapsedTime: 56.9 seconds

RetCode: 0

Status:  OK

CheckDir: hopach.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:hopach.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings hopach_2.40.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.7-bioc/meat/hopach.Rcheck’
* using R version 3.5.1 Patched (2018-07-12 r74967)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘hopach/DESCRIPTION’ ... OK
* this is package ‘hopach’ version ‘2.40.0’
* 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 ‘hopach’ can be installed ... 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 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 compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
            user system elapsed
boot2fuzzy 6.732  0.004   6.743
makeoutput 6.560  0.000   6.568
bootstrap  6.516  0.000   6.524
bootplot   6.500  0.000   6.504
* 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
  ‘/home/biocbuild/bbs-3.7-bioc/meat/hopach.Rcheck/00check.log’
for details.

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### Running command:
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###   /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL hopach
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* installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’
* installing *source* package ‘hopach’ ...
** libs
gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -Wall -c Rdistances.c -o Rdistances.o
gcc -I"/home/biocbuild/bbs-3.7-bioc/R/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2  -Wall -c hdist.c -o hdist.o
gcc -shared -L/home/biocbuild/bbs-3.7-bioc/R/lib -L/usr/local/lib -o hopach.so Rdistances.o hdist.o -L/home/biocbuild/bbs-3.7-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.7-bioc/R/library/hopach/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
Creating a generic function from function ‘as.hdist’ in package ‘hopach’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (hopach)

name	user	system	elapsed
boot2fuzzy	6.732	0.004	6.743
bootplot	6.500	0.000	6.504
bootstrap	6.516	0.000	6.524
correlationordering	0.032	0.000	0.032
disscosangle	0.000	0.000	0.001
distancematrix	0.000	0.004	0.006
dplot	0.056	0.000	0.056
hdist-class	0.008	0.000	0.011
hopach	0.352	0.004	0.354
hopach.internal	0	0	0
hopach2tree	0.212	0.000	0.211
labelstomss	0.192	0.000	0.192
makeoutput	6.560	0.000	6.568
prune	1.364	0.004	1.370