Hello Daniel,
I had the same problem when I started to work with Galaxy workflows.
My workaround is:
1) Modify the first tool of the workflow
Make it work on a simple text file that contains a list of input file paths (one by line) instead of several files.
2) Create a galaxy tools that can create this list from a galaxy history
3) Build a workflow with only one input slot for the first tool (the list)
Hope this helps :)
Have a nice day,
Aurélien
Le 06/03/2012 10:01, Daniel Sobral a écrit :
Hi Jennifer,
Thanks for the reply. However, my question was not about building tools. My question was about building a workflow (using the workflow editor with existing tools), as a user of galaxy.
Using the workflow editor, when I create a workflow using a tool that allows a variable number of inputs, it seems that I have to define the number of inputs during workflow creation and not when I run the workflow. I was just asking if it would be feasible to have a variable number of inputs (only defined when a running instance of a workflow is created). It feels to me that the answer is no.
Thanks again, Daniel
On Mon 05 Mar 2012 05:56:16 PM WET, Jennifer Jackson wrote:
Hello Daniel,
Examining existing tools that have multiple/optional inputs can be a good way to see how this is done. One example is the tool: "NGS: QC and manipulation -> Manipulate FASTQ".
The 'Manipulate FASTQ' tool source is here: http://bitbucket.org/galaxy/galaxy-central/src/e58a87c91bc4/tools/fastq/
fastq_manipulation.py fastq_manipulation.xml
The tool tag set is defined in this wiki; http://wiki.g2.bx.psu.edu/Admin/Tools/Tool%20Config%20Syntax
See<repeat>,<conditional>, and<when> for more details and examples.
Questions about tools are best sent to the galaxy-dev@bx.psu.edu mailing list (the galaxy-user list is primarily for questions about data/tools usages on the main public instance). I am going to forward your question over there so that the development community can add to my reply in case they have a simpler way of doing this or other advice.
Best,
Jen Galaxy team
On 3/5/12 7:32 AM, Daniel Sobral wrote:
Hi,
I wanted to build a workflow where the first step would be a tool that can have a variable number of inputs (e.g. a series). It seems that I need to predefine apriori the number of inputs to give to the tool.
Is there a way to define the number of inputs at runtime? E.g. a series-like input?
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