Dear Dannon,

when the parameter (that I need to fix) is 'set at runtime', the value that it gets is:  __lt__galaxy.tools.parameters.basic.RuntimeValue


----
python workflow_execute_parameters.py 43359c833b8977b01d6237d9b839dc27 http://127.0.0.1:8080/api/workflows f2db41e1fa331b3e a799d38679e985db '14=hda=52ea4fd71e9f7c3f'  'param=export_sbw=prefix="test"'

----
the parameter prefix needs to be set at the value "test" (I tried without the quotes also)

---

Here is what you asked for:
{
    "id": "f2db41e1fa331b3e",
    "inputs": {
        "14": {
            "label": "input Dataset",
            "value": ""
        }
    },
    "model_class": "StoredWorkflow",
    "name": "export_WF",
    "published": false,
    "steps": {
        "14": {
            "id": 14,
            "input_steps": {},
            "tool_id": null,
            "type": "data_input"
        },
        "15": {
            "id": 15,
            "input_steps": {
                "inputs_0|input": {
                    "source_step": 14,
                    "step_output": "output"
                }
            },
            "tool_id": "export_sbw",
            "type": "tool"
        }
    },
    "tags": [],
    "url": "/api/workflows/f2db41e1fa331b3e"
}

----

as you can see, the parameter called prefix, is not there.


Thank you for your help

--
Olivia



Le 25/04/14 19:49, Dannon Baker a écrit :
Olivia,

Is the parameter set to 'set at runtime' when you view the workflow in the editor?  Could you send me the workflow json (just the http://127.0.0.1:8080/api/workflows/<workflow_id>/ bit)?

-Dannon


On Fri, Apr 25, 2014 at 5:26 AM, Olivia Doppelt-Azeroual <olivia.doppelt@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 question though.

The second step of my WF uses a parameter input named "prefix". I really need to specify it when I launch the WF using the API.

When i display the WF using the url you gave me, the parameters prefix, is not there and when I use this in my command line, the specified Value is not read by Galaxy.

python workflow_execute_parameters.py 43359c833b8977b01d6237d9b839dc27 http://127.0.0.1:8080/api/workflows f2db41e1fa331b3e a799d38679e985db '10=hda=52ea4fd71e9f7c3f'  'param=export_sbw=prefix=test'

Could you help me on that ? How do I give a value to a parameter if it does not appear in the WF description ??

Thanks in advance,
--
Olivia


Le 23/04/14 18:40, Dannon Baker a écrit :
Hi Olivia!

It's probably talking about the "workflowstep" object with identifier 8.  If you request the description of this workflow via the API (http://yourgalaxyinstance.org/api/workflows/<the id of this workflow>"), you'll be given the exact step identifiers to use.  In other words, unless this is the first workflow ever created on a brand new galaxy instance, your step ids will not be 0 and 1.

-Dannon


On Wed, Apr 23, 2014 at 12:30 PM, Olivia Doppelt-Azeroual <olivia.doppelt@pasteur.fr> wrote:
Dear developpers,

I'm trying to launch a small workflow using the api script workflow_execute_parameters.py

I have 2 steps: the input data step and a second step which needs a parameter called prefix.


The workflow is attached to this email.

I get an error on the parameters inputs which 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


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-- 
Olivia Doppelt-Azeroual, PhD
Tel: 92 15
CIB - Institut Pasteur




-- 
Olivia Doppelt-Azeroual, PhD
Tel: 92 15
CIB - Institut Pasteur