I'll submit a pull request shortly...

John Duddy
Sr. Staff Software Engineer
Illumina, Inc.
9885 Towne Centre Drive
San Diego, CA 92121
Tel: 858-736-3584
E-mail: jdu...@illumina.com


-----Original Message-----
From: Nate Coraor (n...@bx.psu.edu) [mailto:n...@bx.psu.edu] 
Sent: Wednesday, November 02, 2011 12:24 PM
To: Duddy, John
Cc: Chorny, Ilya; galaxy-dev@lists.bx.psu.edu
Subject: Re: Looks like actual user breaks splitting

John, Ilya,

I get further with sequence type inputs but it looks like
JobWrapper.get_output_datasets_and_fnames() is not returning the right
thing when outputs_to_working_directory = True

BTW, the base Data.split() method is broken after the updates to
Sequence.split() since it wasn't updated to expect
HistoryDatasetAssociations rather than filenames.  Could you take a look
at that when you get a chance?

--nate

Duddy, John wrote:
> The datatype you are using does not define a split method. Are you working 
> with our in-progress gz type or fastqillumina?
> 
> John Duddy
> Sr. Staff Software Engineer
> Illumina, Inc.
> 9885 Towne Centre Drive
> San Diego, CA 92121
> Tel: 858-736-3584
> E-mail: jdu...@illumina.com<mailto:jdu...@illumina.com>
> 
> From: Chorny, Ilya
> Sent: Wednesday, November 02, 2011 11:50 AM
> To: Duddy, John
> Cc: Nate Coraor (n...@bx.psu.edu); galaxy-dev@lists.bx.psu.edu
> Subject: Looks like actual user breaks splitting
> 
> Hey John,
> 
> Any thoughts?
> 
> Ilya
> 
> Traceback (most recent call last):
>   File 
> "/home/galaxy/ichorny/galaxy-central/lib/galaxy/jobs/runners/tasks.py", line 
> 73, in run_job
>     tasks = splitter.do_split(job_wrapper)
>   File 
> "/home/galaxy/ichorny/galaxy-central/lib/galaxy/jobs/splitters/multi.py", 
> line 73, in do_split
>     input_type.split(input_datasets, get_new_working_directory_name, 
> parallel_settings)
>   File "/home/galaxy/ichorny/galaxy-central/lib/galaxy/datatypes/data.py", 
> line 473, in split
>     raise Exception("Text file splitting does not support multiple files")
> Exception: Text file splitting does not support multiple files
> 
> Ilya Chorny Ph.D.
> Bioinformatics Scientist I
> Illumina, Inc.
> 9885 Towne Centre Drive
> San Diego, CA 92121
> Work: 858.202.4582
> Email: icho...@illumina.com<mailto:icho...@illumina.com>
> Website: www.illumina.com<http://www.illumina.com>
> 
> 

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