Re: [galaxy-dev] bioblend problem trying to use run_tool function

line. options are there but no values are there. Could you give me a use case, so I can mime it to my project ? Thanks in advance, -- Olivia Doppelt-Azeroual CIB, Institut Pasteur, Paris Le 27/02/14 14:46, John Chilton a écrit : I think you are right, and I am right, but you more so :). I bet

Re: [galaxy-dev] workflow_execute_parameters.py

/workflows/workflow_id/ bit)? -Dannon On Fri, Apr 25, 2014 at 5:26 AM, Olivia Doppelt-Azeroual olivia.dopp...@pasteur.fr mailto:olivia.dopp...@pasteur.fr wrote: Dear Dannon, Thank you for your answer, it works better now that I know the steps ID for my workflow. I have another

Re: [galaxy-dev] workflow_execute_parameters.py

, your step ids will not be 0 and 1. -Dannon On Wed, Apr 23, 2014 at 12:30 PM, Olivia Doppelt-Azeroual olivia.dopp...@pasteur.fr mailto:olivia.dopp...@pasteur.fr wrote: Dear developpers, I'm trying to launch a small workflow using the api script workflow_execute_parameters.py

[galaxy-dev] workflow_execute_parameters.py

asks me to specify information about an 8th step (which does not exist) Is there a test case available to use this script ? Please keep me informed on that. Have a nice day, -- Olivia Doppelt-Azeroual, PhD Tel: 92 15 CIB - Institut Pasteur { a_galaxy_workflow: true, annotation

[galaxy-dev] launching openmpi tool with Galaxy

has an explanation for that ? Thanks in advance, -- Olivia Doppelt-Azeroual, PhD Tel: 92 15 CIB - Institut Pasteur ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other

[galaxy-dev] bioblend run_tool function used with a tool containing repeats for inputs in its XML

. Is there an example of a run_tool utilisation ? somewhere ? Thanks in advance for your help. Have a nice day, -- Olivia Doppelt-Azeroual, PhD Tel: 92 15 CIB - Institut Pasteur ___ Please keep all replies on the list by using reply all

Re: [galaxy-dev] bioblend problem trying to use run_tool function

div align=rightWSGI Server/div /body /html ___ I'm currently trying to understand this error. Please tell me if you know anything about this error. Have a nice day, -- Olivia Doppelt-Azeroual, PhD Tel

Re: [galaxy-dev] bioblend problem trying to use run_tool function

} ] }, type: error } } On the galaxy side, there is no error message. Sorry for the many mails but I prefer to keep you updated so you dont waste time. -- Olivia Le 24/02/14 15:29, Olivia Doppelt-Azeroual a écrit : Yes, indeed, the log from

Re: [galaxy-dev] BioBlend AND Galaxy: Problem using upload_file_from_server function with an associated role

: I am stumped, I am not sure how this would happen. How did you apply the patch against the -dist stable code? Can you send me the full contents of the patched ..api/library_contents.py file? -John On Tue, Jan 7, 2014 at 9:48 AM, Olivia Doppelt olivia.dopp...@pasteur.fr wrote: Dear John

Re: [galaxy-dev] BioBlend AND Galaxy: Problem using upload_file_from_server function with an associated role

AS role_name, role.description AS role_description, role.type AS role_type, role.deleted AS role_deleted \nFROM role \nWHERE role.id = %(param_1)s' {'param_1': 'odoppelt__at__pasteur.fr'} _ Le 06/01/14 18:34, Olivia Doppelt a écrit : Hello John, Thank you very much for the patch

Re: [galaxy-dev] BioBlend AND Galaxy: Problem using upload_file_from_server function with an associated role

bioblend. -- Olivia Le 04/01/14 22:10, Olivia Doppelt a écrit : Le 03/01/14 15:44, John Chilton a écrit : I am not sure I understand the problem. Can you clarify a few points: Is bioblend letting users associate roles with data libraries that they shouldn't be able to and the operation

Re: [galaxy-dev] BioBlend AND Galaxy: Problem using upload_file_from_server function with an associated role

kind of stuck. Thank you for your help, Cheers, -- Olivia Doppelt-Azeroual, PhD CIB - Institut Pasteur On Fri, Jan 3, 2014 at 5:36 AM, Olivia Doppelt olivia.dopp...@pasteur.fr wrote: Hello to all, I'm trying to use the function upload_file_from_server from the galaxy libraries api

[galaxy-dev] BioBlend AND Galaxy: Problem using upload_file_from_server function with an associated role

with that ? Happy new Year !!! and Have a nice day, -- Olivia Doppelt-Azeroual, PhD Tel: 92 15 CIB - Institut Pasteur ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other

[galaxy-dev] api script import_library_dataset_to_history.py problem

/decoder.py, line 420, in raw_decode simplejson.decoder.JSONDecodeError: No JSON object could be decoded: line 1 column 0 (char 0) Thanks in advance, Cheers, -- Olivia Doppelt-Azeroual, PhD Tel: 92 15 CIB - Institut Pasteur ___ Please keep

[galaxy-dev] conditions within workflows

, -- Olivia Doppelt-Azeroual, PhD Tel: 92 15 CIB - Institut Pasteur ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface

[galaxy-dev] workflow multiple inputs

, Olivia Doppelt-Azeroual Pasteur Institute, CIB, PARIS ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http