Hi,
please find attached a small patch that add the gen_image()
functionality to the export-workflow UI.
I was not able to figure out how to add a patch to the trello card. But
at least i created one ;).
https://trello.com/c/PGz7JNzO
Ciao,
Bjoern
> Thanks for sharing Peter.
>
> FWIW, there is already code in Galaxy to generate SVG from a workflow. See
> the gen_image function in web/controllers/workflow.py I think this code is
> used when workflows are included in the tool shed as well.
>
> If your code is better in some way(s), please consider a pull request. It
> should be fairly straightforward to add an option to a workflow's menu to
> generate SVG for it.
>
> Best,
> J.
>
> On May 23, 2012, at 4:44 PM, Peter van Heusden wrote:
>
> > Hi there
> >
> > Because my Galaxy workflows tend to sprawl outside the viewable space in
> > my browser, I've written a script that, when given a workflow JSON file
> > as input, writes out a graphviz dot format graph of the workflow. By
> > default the graph treats datasets as nodes and analyses as edges (unlike
> > the Galaxy workflow editor, but quite like the way the history is
> > presented), but you can choose to have analyses as nodes (and thus
> > datasets as edges) too.
> >
> > In case anyone else finds this useful, the code can be downloaded from
> > my bitbucket:
> >
> > https://bitbucket.org/pvanheus/galaxy/src/f29453f3d9d8/contrib/workflow_to_dot.py
> >
> > Usage is something like:
> >
> > ./workflow_to_dot.py Galaxy-Workflow.ga |dot -Tsvg >workflow.svg
> >
> > and then you can view your workflow.svg with eog or another viewer.
> >
> > Peter
> >
> > ___________________________________________________________
> > Please keep all replies on the list by using "reply all"
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> > http://lists.bx.psu.edu/
>
>
> ___________________________________________________________
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diff -r 34404f848979 lib/galaxy/webapps/galaxy/controllers/workflow.py
--- a/lib/galaxy/webapps/galaxy/controllers/workflow.py Sat Jan 19 17:54:48 2013 -0500
+++ b/lib/galaxy/webapps/galaxy/controllers/workflow.py Sun Jan 20 16:32:39 2013 +0100
@@ -993,6 +993,14 @@
stored = self.get_stored_workflow( trans, id, check_ownership=False, check_accessible=True )
return self._workflow_to_dict( trans, stored )
+ @web.expose
+ def export_to_image( self, trans, id ):
+ """
+ Get the latest Workflow for the StoredWorkflow identified by `id` and plot it to a canvas XML object.
+
+ """
+ return self.gen_image(trans, id)
+
@web.json_pretty
def export_to_file( self, trans, id ):
"""
diff -r 34404f848979 templates/export_base.mako
--- a/templates/export_base.mako Sat Jan 19 17:54:48 2013 -0500
+++ b/templates/export_base.mako Sun Jan 20 16:32:39 2013 +0100
@@ -92,6 +92,13 @@
Download ${get_class_display_name( item.__class__ ).lower()} to file so that it can be saved or imported into another Galaxy server.</a>
</%def>
+<%def name="render_workflow_to_image(item)">
+ <h3>Download as Image</h3>
+
+ <a href="${h.url_for( action='export_to_image', id=trans.security.encode_id( item.id ) )}">
+ Create ${get_class_display_name( item.__class__ ).lower()} image and download it as vector image.</a>
+</%def>
+
<%def name="render_more(item)">
## Override.
</%def>
@@ -109,9 +116,11 @@
${self.render_download_to_file(item)}
+ ${self.render_workflow_to_image(item)}
+
${self.render_url_for_importing(item)}
${self.render_more(item)}
${self.render_footer()}
-</%def>
\ No newline at end of file
+</%def>
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