Re: [galaxy-dev] Multiple output datasets

; and "/my/file/path/". Do exactly this: myTool.sh $input1 $output1 $output1.id $__new_file_path__ And then use the variables in your script ("$output.id" will provide you with eg "546" and "$__new_file_path__" with the output path) Stef - Orig

Re: [galaxy-dev] Multiple output datasets

directory path. Save all the extra output files to that directory with the exact format: primary__somename_visible_filetype (eg primary_546_output2_visible_bed) Stef - Original message ----- From: Martin Christiansen To: Stef van Lieshout , "galaxy-dev@lists.bx.psu.edu"

Re: [galaxy-dev] Multiple output datasets

form: "%s_%s_%s_%s_%s_%s" % ( 'primary', output1.id, name, 'visible', file_type, dbkey(build) ) Where the '_dbkey' portion of the name is optional. Stef - Original message - From: Martin Christiansen To: Stef van Lieshout , "galaxy-dev@lists.

Re: [galaxy-dev] Multiple output datasets

age - From: Martin Christiansen To: "galaxy-dev@lists.bx.psu.edu" Subject: [galaxy-dev] Multiple output datasets Date: Wed, 27 Aug 2014 12:04:46 +0200 Hi all, I'm implementing a tool for our local galaxy instance which has multiple output datasets. The number of datasets

[galaxy-dev] Multiple output datasets

les. As I understand, the $__new_file_path__ option is changed in the universe_wsgi.ini file. Regardless, the extra files created from the tool does not show in the galaxy history. Any ideas? Best, Martin Ch

Re: [galaxy-dev] TypeError with 'dict'

ere the problem is coming from. > > > > --nate > > > > On Aug 12, 2014, at 4:17 AM, bjoern.gruen...@googlemail.com > > wrote: > > > > Hi, > > > > Galaxy stores all information about a tool and it's parameters in a > > database. > >

Re: [galaxy-dev] TypeError with 'dict'

ermining exactly where the problem is coming from. > > > > --nate > > > > On Aug 12, 2014, at 4:17 AM, bjoern.gruen...@googlemail.com > > wrote: > > > > Hi, > > > > Galaxy stores all information about a tool and it's parameters in a > > datab

Re: [galaxy-dev] TypeError with 'dict'

> > please keep galaxy-dev in the CC list. > > Am 12.08.2014 um 08:51 schrieb Martin Christiansen: > > Hi Björn, > > > > Most certainly. I have posted it below. > > > > > > -> add here a version number version="0.1"

Re: [galaxy-dev] TypeError with 'dict'

Hi Björn, It looks like this. against hg19 screen_reads.sh $Project.input $Project.samples $Project $Samples galaxy_test1 Untitled Folder 147406386-700171390 158256496-700097688

[galaxy-dev] TypeError with 'dict'

2.7-linux-x86_64-ucs4.egg/sqlalchemy/orm/identity.py", line 141 in get state = dict.get(self, key, default) Any suggestions of how to solve this? Best regards, Martin Christiansen