[galaxy-dev] galaxy.tools.parameters.basic.RuntimeValue not str

2015-01-02 Thread Pandori n
Hi all!
Maybe somebody faced with this problem:

1) in my wf used tool with:
"u'model_class': u'Conditional',
 u'type': u'conditional',
 u'name': u'reference_genome'}], "

2) when i run wf via web - all ok, and on a second step:
"Select a reference genome" is "test" (in view details)

But, when i run wf via api:

param = {u'mapper_easy' :{u'param': u'reference_genome|index', u'value':
u'test'}}
nuser.workflows.run_workflow(workflow_id=wf_id, dataset_map=dataset_map,
params=param, history_id=hist_id)

wf started and on a second step is failed... In details:
"Select a reference genome" is ""

Any help is appreciated. Thanks!
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[galaxy-dev] Deleted tool temp dir

2014-12-01 Thread Pandori n
Hi all.
Config:
- galaxy-dist stable (changeset:   11247:a9a0ac9c1afa) [Dec/18/2013]
- NFS
- Cluster (torque)

When i start my WF,  on step 2, in 'job_working_directory' created temp
(intermediate) dir (for tool step 3). But when step 2 is completed, temp
dir (in  'job_working_directory') removed(via galaxy) and step 3 failed. In
'universe_wsgi.ini'  'cleanup_job = never'. Why galaxy.jobs deleted temp
dir?

Any help is appreciated. Thanks.
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