Back to the "Multiple platform build/check report" A  B  C  D  E  F  G  H  I  J  K  L  M  N  O  P  Q  R [S] T  U  V  W  X  Y  Z 

BioC 3.4: CHECK report for SIMAT on malbec1

This page was generated on 2017-04-15 16:12:49 -0400 (Sat, 15 Apr 2017).

Package 1148/1296HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SIMAT 1.6.1
Mo R. Nezami Ranjbar
Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/SIMAT
Last Changed Rev: 124902 / Revision: 128728
Last Changed Date: 2016-12-07 18:58:54 -0500 (Wed, 07 Dec 2016)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: SIMAT
Version: 1.6.1
Command: /home/biocbuild/bbs-3.4-bioc/R/bin/R CMD check --no-vignettes --timings SIMAT_1.6.1.tar.gz
StartedAt: 2017-04-15 01:19:07 -0400 (Sat, 15 Apr 2017)
EndedAt: 2017-04-15 01:20:00 -0400 (Sat, 15 Apr 2017)
EllapsedTime: 52.7 seconds
RetCode: 0
Status:  OK 
CheckDir: SIMAT.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.4-bioc/R/bin/R CMD check --no-vignettes --timings SIMAT_1.6.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.4-bioc/meat/SIMAT.Rcheck’
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SIMAT/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SIMAT’ version ‘1.6.1’
* 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 ‘SIMAT’ 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 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
getRIStandard: no visible global function definition for ‘read.csv’
plotEIC: no visible global function definition for ‘stack’
plotEIC: no visible global function definition for ‘dnorm’
plotEIC: no visible global function definition for ‘dev.copy’
plotEIC: no visible binding for global variable ‘pdf’
plotEIC: no visible global function definition for ‘dev.off’
plotTIC: no visible binding for global variable ‘rt’
Undefined global functions or variables:
  dev.copy dev.off dnorm pdf read.csv rt stack
Consider adding
  importFrom("grDevices", "dev.copy", "dev.off", "pdf")
  importFrom("stats", "dnorm", "rt")
  importFrom("utils", "read.csv", "stack")
to your NAMESPACE file.
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘runTests.R’
 OK
* 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-3.4-bioc/meat/SIMAT.Rcheck/00check.log’
for details.


SIMAT.Rcheck/00install.out:

* installing *source* package ‘SIMAT’ ...
** 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 (SIMAT)

SIMAT.Rcheck/SIMAT-Ex.timings:

nameusersystemelapsed
Library0.0040.0000.005
RItable0.0000.0040.001
Run0.0720.0000.073
Targets0.0040.0000.002
getEIC0.1800.0040.184
getPeak0.4480.0040.455
getPeakScore0.3560.0000.356
getRI0.0000.0000.002
getRIStandard0.0040.0000.005
getScore0.0000.0000.001
getTarget2.0920.0002.094
getTargetTable0.0040.0000.002
optFrag2.1120.0002.114
plotEIC0.8080.0040.816
plotTIC0.3320.0000.333
putTargetTable0.0000.0000.002
readCDF1.5560.0041.564