Question: How can I "save" a static snapshot...?
You can't yet.
Question: If so, can I then ...recreate the pie chart?
No, not yet.
Overall, these are features that we definitely want and we are working
towards them. Questions remain for me, if I understand your original
questions, about these two features.
Re: saving a visualization to a history:
- What is the final use of the 'hardcopy' (png or pdf) of the
visualization? In other words, is it for: publication or exposition,
summary/overview info, a jumping off point for exploring the data, or
- Isn't this an artifact (a view or byproduct) of the analysis and not
actually a dataset itself?
- Do you want a static version or, if possible, easier access to a
pre-configured interactive visualization?
- Would a saved visualization (of the type you find under
'Visualizations->Saved Visualizations' menu) work in a png or pdf's
In any event, I think more flexible conversion of visualizations to
hardcopies is doable with some added backend technology like ImageMagick to
render SVG to PNG, etc. If also wrapped in a tool, this would let us add
these to the history.
Re: generating a visualization from a workflow:
- Would a saved visualization work here as well?
I think the main problem here is translation of what may be a more complex
visualization UI (to control the configuration) to something that can be
more simply rendered in a workflow page (as tool configurations are now).
At least some of the configuration could be handled this way, at any rate -
things like Chart's chart type, and data columns, etc.
There are ways to pass visualization configurations directly over the url,
so this may be easier than I think too.
These are good ideas. Thanks, Peter.
On Tue, Mar 10, 2015 at 7:46 AM, Peter Cock <p.j.a.cock(a)googlemail.com>
On Tue, Mar 10, 2015 at 11:24 AM, Peter Cock
> Hello all,
> I'm hoping to construct a workflow which produces a simple tally table
> (using the "Count1" tool, "Count occurrences of each record",
> still shipped with the Galaxy core) and then draws this as a Pie Chart.
> 1. Using "Count1", generate tally table (a simple two column tabular
> counts and labels as c1 and c2) in the history.
> 2. Click on the tally table in the history to expand the green box
> 3. Click on the "Visualize" icon, pick "Charts", click on
> 4. Click "Draw" or the "Configuration" tab.
> 5. Change donut ratio to zero, show legend to true, and show labels
> output to true.
> 6. Click "Draw" or the "Add Data" tab.
> 7. Under "Select Columns", "Labels", pick c2
> 8. Under "Select Columns", "Values", keep default c1
> 9. Click "Draw"
> 10. Admire interactive Pie Chart
> 11. Click "Screenshot", offered PNG / SVG / PDF but these are
> only direct downloads (well, PDF is more complicated).
> Question: How can I "save" a static snapshot of the Pie Chart as a
> new history item (other than downloading it locally and then uploading
> Question: If so, can I then turn this history into a workflow which
> would recreate the pie chart?
> As a work around I could write a traditional Galaxy tool which takes
> as input data files(s) and pre-sets the columns and visualisation
> settings, and produces static image(s) as output (e.g. PDF and PNG).
I should add that I've tried this on both the latest Galaxy from GitHub
running locally as my development server, and with the current stable
release at http://usegalaxy.org
Also the "Screenshot" button has a camera icon (makes sense). I'd
like a "Save" button (using the disk icon) as well or instead. Meanwhile
the "Draw" button (used in steps 4, 6, 9) has a disk icon which seems
somewhat confusing to me (it doesn't save - it takes you to another
interactive page within Galaxy).
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