Back to Workflows build report for BioC 3.7

BUILD WEB VIG report for RNAseq123 on malbec2

This page was generated on 2018-05-18 12:48:06 -0400 (Fri, 18 May 2018).

Package 15/21HostnameOS / ArchINSTALLBUILDBUILD WEB VIG
RNAseq123 1.2.0
Matthew Ritchie
Snapshot Date: 2018-05-18 07:35:08 -0400 (Fri, 18 May 2018)
URL: https://git.bioconductor.org/packages/RNAseq123
Branch: RELEASE_3_7
Last Commit: 662df8f
Last Changed Date: 2018-04-30 10:07:09 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: RNAseq123
Version: 1.2.0
Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/RNAseq123/limmaWorkflow.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/RNAseq123/limmaWorkflow.Rmd", ".buildwebvig/RNAseq123/limmaWorkflow.R")'
StartedAt: 2018-05-18 08:48:45 -0400 (Fri, 18 May 2018)
EndedAt: 2018-05-18 08:49:34 -0400 (Fri, 18 May 2018)
EllapsedTime: 48.6 seconds
RetCode: 0
Status:  OK 

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'rmarkdown::render(".buildwebvig/RNAseq123/limmaWorkflow.Rmd", output_format="BiocStyle:::html_fragment")' && /home/biocbuild/bbs-3.7-bioc/R/bin/R -q -e 'knitr::purl(".buildwebvig/RNAseq123/limmaWorkflow.Rmd", ".buildwebvig/RNAseq123/limmaWorkflow.R")'
###
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> rmarkdown::render(".buildwebvig/RNAseq123/limmaWorkflow.Rmd", output_format="BiocStyle:::html_fragment")


processing file: limmaWorkflow.Rmd

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label: downloadData
trying URL 'https://www.ncbi.nlm.nih.gov/geo/download/?acc=GSE63310&format=file'
Content type 'application/x-tar' length 1996800 bytes (1.9 MB)
==================================================
downloaded 1.9 MB


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Attaching package: 'gplots'

The following object is masked from 'package:IRanges':

    space

The following object is masked from 'package:S4Vectors':

    space

The following object is masked from 'package:stats':

    lowess


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output file: limmaWorkflow.knit.md

/usr/bin/pandoc +RTS -K512m -RTS limmaWorkflow.utf8.md --to html4 --from markdown+autolink_bare_uris+ascii_identifiers+tex_math_single_backslash+smart --output limmaWorkflow.html --email-obfuscation none --self-contained --wrap preserve --standalone --section-divs --table-of-contents --toc-depth 3 --template /home/biocbuild/bbs-3.7-bioc/R/library/BiocStyle/resources/fragment.html --no-highlight --number-sections --mathjax --variable 'mathjax-url:https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML' --filter /usr/bin/pandoc-citeproc 

Output created: limmaWorkflow.html
> 
> 
> knitr::purl(".buildwebvig/RNAseq123/limmaWorkflow.Rmd", ".buildwebvig/RNAseq123/limmaWorkflow.R")


processing file: .buildwebvig/RNAseq123/limmaWorkflow.Rmd

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output file: .buildwebvig/RNAseq123/limmaWorkflow.R

[1] ".buildwebvig/RNAseq123/limmaWorkflow.R"
> 
>