I'll take a look at the workflow in question, if you'd like to share it with me at this email address, 'dannonbaker@me.com'.

-Dannon


On Apr 20, 2011, at 12:42 PM, David Matthews wrote:

Hi,

I've followed this thread with interest. I have had a problem on one of my workflows, it fails to perform a sort on a dataset returning the error "sort: invalid number at field start: invalid count at start of `None,Nonen'". However, this error makes no sense. When I ask it to run the job again with the input it is supposed to sort it works just fine. When the workflow is getting ready to be submitted I've checked and double checked all the links and they are correct too. Is my error related in some way? Does this make sense?

Best Wishes,

David.

__________________________________

Dr David A. Matthews

Senior Lecturer in Virology

Room E49

Department of Cellular and Molecular Medicine,

School of Medical Sciences

University Walk,

University of Bristol

Bristol.

BS8 1TD

U.K.

Tel. +44 117 3312058

Fax. +44 117 3312091

D.A.Matthews@bristol.ac.uk

On 20 Apr 2011, at 15:47, Dannon Baker wrote:

The issue you're seeing is actually related to improper initialization of the workflow parameters index in the special case where a particular parameter is only used in a rename action and not in a tool step.  This is fixed in revision 5400:6cacf178a129.

-Dannon

On Apr 20, 2011, at 10:28 AM, Peter Cock wrote:

Hi all,

I noticed a new problem with our local Galaxy (recently updated),

but found it happens on the public installation too.

I can edit workflows, and create run time parameters like ${Name}

or ${Name with spaces}, but when I come to run the workflow I get

an error:

Server Error

An error occurred. See the error logs for more information.

(Turn debug on to display exception reports here)

e.g. This trivial example takes a FASTA file, does a minimum length

filter, and tries to rename the output to a run time parameter string:

http://main.g2.bx.psu.edu/u/peterjc/w/test-workflow-filter-fasta-min-length-10

Is this a known issue? I couldn't find a match on the bitbucket

tracker.

Thanks,

Peter

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___________________________________________________________

The Galaxy User list should be used for the discussion of

Galaxy analysis and other features on the public server

at usegalaxy.org.  Please keep all replies on the list by

using "reply all" in your mail client.  For discussion of

local Galaxy instances and the Galaxy source code, please

use the Galaxy Development list:

http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,

please use the interface at:

http://lists.bx.psu.edu/