BioC 3.2: CHECK report for conumee on linux1.bioconductor.org
This page was generated on 2015-10-27 17:27:11 -0400 (Tue, 27 Oct 2015).
conumee 1.2.0 Volker Hovestadt
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/conumee | 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 | ERROR | 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 |  |
Summary
Package: conumee |
Version: 1.2.0 |
Command: /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings conumee_1.2.0.tar.gz |
StartedAt: 2015-10-27 02:28:31 -0400 (Tue, 27 Oct 2015) |
EndedAt: 2015-10-27 02:45:47 -0400 (Tue, 27 Oct 2015) |
EllapsedTime: 1035.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: conumee.Rcheck |
Warnings: 0 |
Command output
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.2-bioc/R/bin/R CMD check --no-vignettes --timings conumee_1.2.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.2-bioc/meat/conumee.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 ‘conumee/DESCRIPTION’ ... OK
* this is package ‘conumee’ version ‘1.2.0’
* 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 ... NOTE
Found the following hidden files and directories:
.BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘conumee’ can be installed ... [18s/18s] 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
CNV.load,matrix : .local: no visible binding for global variable ‘anno’
* 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 R/sysdata.rda ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [14m/14m] OK
Examples with CPU or elapsed time > 5s
user system elapsed
CNV.detailplot 107.341 0.331 107.829
CNV.detailplot_wrap 101.314 0.336 101.960
CNV.analysis-class 97.064 0.896 98.032
CNV.write 95.537 0.324 95.956
CNV.genomeplot 94.518 0.328 94.880
CNV.segment 93.817 0.004 93.903
CNV.bin 51.319 0.188 51.546
CNV.detail 51.449 0.024 51.526
CNV.create_anno 46.934 0.000 47.001
CNV.anno-class 44.675 0.008 44.710
CNV.fit 43.675 0.024 43.730
read.450k.url 4.205 0.028 6.708
* 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: 2 NOTEs
See
‘/home/biocbuild/bbs-3.2-bioc/meat/conumee.Rcheck/00check.log’
for details.
conumee.Rcheck/00install.out:
* installing *source* package ‘conumee’ ...
** 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 (conumee)
conumee.Rcheck/conumee-Ex.timings:
name | user | system | elapsed
|
CNV.analysis-class | 97.064 | 0.896 | 98.032 |
|
CNV.anno-class | 44.675 | 0.008 | 44.710 |
|
CNV.bin | 51.319 | 0.188 | 51.546 |
|
CNV.create_anno | 46.934 | 0.000 | 47.001 |
|
CNV.data-class | 1.418 | 0.068 | 1.490 |
|
CNV.detail | 51.449 | 0.024 | 51.526 |
|
CNV.detailplot | 107.341 | 0.331 | 107.829 |
|
CNV.detailplot_wrap | 101.314 | 0.336 | 101.960 |
|
CNV.fit | 43.675 | 0.024 | 43.730 |
|
CNV.genomeplot | 94.518 | 0.328 | 94.880 |
|
CNV.load | 1.561 | 0.004 | 1.565 |
|
CNV.segment | 93.817 | 0.004 | 93.903 |
|
CNV.write | 95.537 | 0.324 | 95.956 |
|
read.450k.url | 4.205 | 0.028 | 6.708 |
|