Thanks, that makes sense.

Ilya


-----Original Message-----
From: Ross [mailto:ross.laza...@gmail.com] 
Sent: Thursday, July 28, 2011 10:14 PM
To: Chorny, Ilya
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] dataset_*_file directory being compied to file_path 
when running fastqc

It's a feature although arguably necessitated by what some might consider a 
design bug in FastQC

FastQC insists on writing the html report with links to the generated images 
which it writes to a subdirectory. That won't work for Galaxy's html datatype, 
so the wrapper script unpacks that structure into a Galaxy html datatype and 
adjusts the links in the html so they work correctly when viewed in a history.


On Fri, Jul 29, 2011 at 2:47 PM, Chorny, Ilya <icho...@illumina.com> wrote:
> I am testing the latest galaxy central distribution by running FASTQC. 
> It creates a directory call dataset_*_file in the 
> job_working_directory and then copies that directory to file_path when 
> the job is complete. Is that on purpose or is that a bug?
>
>
>
> Thanks,
>
>
>
> Ilya
>
>
>
> Ilya Chorny Ph.D.
>
> Bioinformatics - Intern
>
> icho...@illumina.com
>
> 858-202-4582
>
>
>
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--
Ross Lazarus MBBS MPH;
Associate Professor, Harvard Medical School; Director of Bioinformatics, 
Channing Lab; Tel: +1 617 505 4850; Head, Medical Bioinformatics, BakerIDI; 
Tel: +61 385321444;

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