[galaxy-dev] problems with 'Profile Annotations' tool UI

2011-06-08 Thread Hans-Rudolf Hotz
Hi we are looking into different methods to display dynamic contents in the tool user interface. To start, we looked at the 'Operate on Genomic Intervals:Profile Annotations' tool. We turned it on in a local installation (May 20, 8c11dd28a3cf release), but we struggled to get the interface

[galaxy-dev] format=input

2011-06-08 Thread Mariette
Hi everyone, I'm facing a little problem ... I have the following input : param name=input type=data format=sff,fasta,fastq label=454 reads / param name=qual_file type=data format=qual optional=true label=Quality reads file (if input is a fasta) / and the following output: data name=output

Re: [galaxy-dev] checkboxes bug fix

2011-06-08 Thread Jennifer Jackson
Hi L-A, Could you describe a use case (which tool/from, what options/input)? If you know the last pull # for your local install, that would also be helpful for us to know. Best, Jen Galaxy team On 6/6/11 2:15 AM, Louise-Amélie Schmitt wrote: Hi, Since I haven't updated Galaxy for a while

Re: [galaxy-dev] CSV import of Sample information Error

2011-06-08 Thread Greg Von Kuster
Joe, Thanks very much for the example csv file. I've fixed this issue in change set 5668:81a5c317d909, which should be available in the distribution within the next few weeks. If you don't want to wait, you can update from our development repo at

Re: [galaxy-dev] galaxy-dev] format=input

2011-06-08 Thread Peter Cock
On Wed, Jun 8, 2011 at 9:26 PM, Jim Johnson johns...@umn.edu wrote: I added an attribute format_source  (analogous to metadata_source)  to the data tag to deal with that kind of issue: see:   https://bitbucket.org/galaxy/galaxy-central/wiki/ToolConfigSyntax Where is the code to handle this?

Re: [galaxy-dev] galaxy-dev] format=input

2011-06-08 Thread Jim Johnson
It went into galaxy-central: $ hg log -pr 5082 changeset: 5082:a86e1fa82a89 user:Kanwei Li kan...@gmail.com date:Thu Feb 17 15:35:07 2011 -0500 summary: Add a format_source attribute to the ToolConfig output data element [JJ Johnson]. Closes #470 diff -r 885f04ae671e -r