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This page was generated on 2021-10-15 15:05:55 -0400 (Fri, 15 Oct 2021).

CHECK results for tracktables on nebbiolo1

To the developers/maintainers of the tracktables package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/tracktables.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1941/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
tracktables 1.26.0  (landing page)
Tom Carroll
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/tracktables
git_branch: RELEASE_3_13
git_last_commit: bccca31
git_last_commit_date: 2021-05-19 12:09:16 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: tracktables
Version: 1.26.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:tracktables.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings tracktables_1.26.0.tar.gz
StartedAt: 2021-10-14 11:54:36 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 11:56:02 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 85.5 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: tracktables.Rcheck
Warnings: 1

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:tracktables.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings tracktables_1.26.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/tracktables.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘tracktables/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘tracktables’ version ‘1.26.0’
* 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 ‘tracktables’ 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 ... WARNING
'library' or 'require' call not declared from: ‘ore’
'library' or 'require' call to ‘ore’ in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
GetGRanges: no visible global function definition for ‘read.delim’
MakeIGVSampleMetadata: no visible global function definition for
  ‘write.table’
MakeIGVSession: no visible global function definition for ‘col2rgb’
MakeIGVSessionXML: no visible global function definition for ‘col2rgb’
maketracktable: no visible global function definition for ‘col2rgb’
Undefined global functions or variables:
  col2rgb read.delim write.table
Consider adding
  importFrom("grDevices", "col2rgb")
  importFrom("utils", "read.delim", "write.table")
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 files in ‘vignettes’ ... OK
* checking examples ... 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 WARNING, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.13-bioc/meat/tracktables.Rcheck/00check.log’
for details.



Installation output

tracktables.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL tracktables
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘tracktables’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (tracktables)

Tests output


Example timings

tracktables.Rcheck/tracktables-Ex.timings

nameusersystemelapsed
MakeIGVSampleMetadata0.0170.0000.017
MakeIGVSession0.0360.0040.040
MakeIGVSessionXML0.0300.0000.031
igvParam0.0350.0000.036
makebedtable0.0880.0000.090
maketracktable0.1330.0120.146