[Bioc-devel] Check error on malbec2

[Shepherd, Lori]

Are these permanent system files or files that are created during examples/vignettes?


Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Aimin Yan <aimin.at.work at gmail.com>
Sent: Tuesday, April 4, 2017 3:41:02 PM
To: Shepherd, Lori
Cc: bioc-devel at r-project.org
Subject: Re: [Bioc-devel] Check error on malbec2

Thank you, I changed to use tempdir(), and it works now.
One more question is how to locate those outputs in temporary directory since I want users to use those outputs.

Aimin

On Tue, Apr 4, 2017 at 2:00 PM, Shepherd, Lori <Lori.Shepherd at roswellpark.org<mailto:Lori.Shepherd at roswellpark.org>> wrote:

Write and access your output to a temporary directory instead using tempdir().



Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Bioc-devel <bioc-devel-bounces at r-project.org<mailto:bioc-devel-bounces at r-project.org>> on behalf of Aimin Yan <aimin.at.work at gmail.com<mailto:aimin.at.work at gmail.com>>
Sent: Tuesday, April 4, 2017 1:45:28 PM
To: bioc-devel at r-project.org<mailto:bioc-devel at r-project.org>
Subject: [Bioc-devel] Check error on malbec2

In the package I am trying ti submit to bioconductor, I got the following
error for check.

Warning in dir.create(output.file.dir) :
  cannot create dir '/home/pkgbuild/OutputEnmap', reason 'Permission denied'
Warning in file(file, ifelse(append, "a", "w")) :
  cannot open file '/home/pkgbuild/OutputEnmap/enrichmap_GO.xls': No such
file or directory
Error in file(file, ifelse(append, "a", "w")) :
  cannot open the connection
Calls: enrichmentmap -> write.table -> file

It seems I do not have permission to create a directory.
Does anyone know how to fix this check error?


Thanks,
Aimin

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