Yes, there is a relationship - in the database there's also a WorkflowStepConnection table that relates inputs and outputs (WorkflowStep + i/o name) between steps.
On Dec 28, 2012, at 8:33 AM, Sachit Adhikari sachit.technerves@gmail.com wrote:
Hi Dannon,
Thank you for your answer. What I meant by the last question is that:
When I create a workflow (tophat-bowtie-bowtie2). The input is first processed by tophat and the output of tophat is processed by bowtie and then the output of bowtie and processed by bowtie2 and that's the final output. There's some sort of relationship, right? Is this relationship stored in database?
On Fri, Dec 28, 2012 at 7:34 AM, Dannon Baker dannonbaker@me.com wrote: A workflow is just the definition of a particular process or set of steps. This information is stored in the database (see Workflow, StoredWorkflow, WorkflowStep tables). Running that workflow creates datasets in a history (datasets which are stored in database/files).
And, I'm not sure exactly what you're asking in your last question, can you clarify?
-Dannon
On Dec 28, 2012, at 2:16 AM, Sachit Adhikari sachit.technerves@gmail.com wrote:
I have searched the mailing list and found that the output, histories and workflows are stored in ~/database/files. To do a little experiment I deleted all the inside that directory. I then open my Galaxy and browse the workflow. But the workflow is still there. I was wondering where is the workflow stored in Galaxy? Also, if possible can I know how is the relationship specified by user while creating workflow is stored?
Happy New year
Regards,
Sachit ___________________________________________________________ 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:
Thanks Dannon for the help. Appreciate it.
On Fri, Dec 28, 2012 at 8:37 AM, Dannon Baker dannonbaker@me.com wrote:
Yes, there is a relationship - in the database there's also a WorkflowStepConnection table that relates inputs and outputs (WorkflowStep
- i/o name) between steps.
On Dec 28, 2012, at 8:33 AM, Sachit Adhikari sachit.technerves@gmail.com wrote:
Hi Dannon,
Thank you for your answer. What I meant by the last question is that:
When I create a workflow (tophat-bowtie-bowtie2). The input is first
processed by tophat and the output of tophat is processed by bowtie and then the output of bowtie and processed by bowtie2 and that's the final output. There's some sort of relationship, right? Is this relationship stored in database?
On Fri, Dec 28, 2012 at 7:34 AM, Dannon Baker dannonbaker@me.com
wrote:
A workflow is just the definition of a particular process or set of
steps. This information is stored in the database (see Workflow, StoredWorkflow, WorkflowStep tables). Running that workflow creates datasets in a history (datasets which are stored in database/files).
And, I'm not sure exactly what you're asking in your last question, can
you clarify?
-Dannon
On Dec 28, 2012, at 2:16 AM, Sachit Adhikari <
sachit.technerves@gmail.com> wrote:
I have searched the mailing list and found that the output, histories
and workflows are stored in ~/database/files. To do a little experiment I deleted all the inside that directory. I then open my Galaxy and browse the workflow. But the workflow is still there. I was wondering where is the workflow stored in Galaxy? Also, if possible can I know how is the relationship specified by user while creating workflow is stored?
Happy New year
Regards,
Sachit ___________________________________________________________ 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:
galaxy-dev@lists.galaxyproject.org
-
Dannon Baker -
Sachit Adhikari