Hi Renato,

You probably need to look at overriding the display_data method
in your subclass, see here for a simple example to render a
binary composte file type as a simple text caption:

https://github.com/peterjc/galaxy_blast/blob/master/datatypes/blast_datatypes/blast.py

You can also override _archive_main_file to change the name of
he default main HTML file generated, or _archive_composite_dataset
for full control - but these are not really intended as public interfaces.

(I did play with this a while back, but right now I forget which
branch this was on...)

Peter

On Thu, Jul 17, 2014 at 6:53 PM, Renato Alves <rjal...@igc.gulbenkian.pt> wrote:
> Hi all,
>
>
> TLDR - Last 2 lines of this email
>
>
> Some time ago we created a wrapper script for breseq, a tool that
> generates a friendly HTML report of mutations.
>
> This was a perfect match for Galaxy given that we could simply set the
> "summary.html" file to be displayed using Galaxy's HTML datatype and
> place all extra media files in $htmlfile.files_path.
>
> However the friendliness quickly became a pain with large datasets. The
> size of the "files_path" folder quickly grew to over 500MB if multiple
> references are used. Still this was not the biggest problem since the
> size is spread over lots of tiny HTML files which work fine in Galaxy's
> preview.
>
> The real nasty hit us when we found that with the HTML format Galaxy
> does on-the-fly compression of the whole folder if a user clicks the
> "download" button. Needless to say most of the time users end up getting
> a server time-out and we get lots of broken pipes on the logs.
>
> An additional complication of the HTML format is that only the size of
> the primary html file is taken into account. So most users didn't
> understand why a 10KB file would cause so much pain to download and why
> was their quota being taken for no apparent reason.
>
>
> So after this we got stuck with 2 alternatives:
>
> 1) Customize the HTML datatype to do /a priori/ zipping instead of
> on-the-fly. Provide this pre-zipped file if users click on the download
> button. Fix the HTML datatype to display the correct size of the full
> dataset.
>
> 2) Provide 2 outputs, the usual HTML file output and an additional
> "complete report" which is a pre-packaged zip file generated by the wrapper.
>
>
> After spending quite some time browsing the existing documentation and
> trying to make sense of the code we gave up on 1).
> Looking at datatype class definitions, in particular HTML and the class
> hierarchy, we couldn't even figure out how the "files_path" mechanism
> worked. Documentation or lack thereof didn't help either.
> Knowing what methods are mandatory and what, when and how are they
> called would be a major help.
>
> So we jumped on 2). Getting the pre-packaged zip was quick and easy. We
> had to create a zip datatype but the existing Binary class worked fine:
>
> <datatype extension="zip" type="galaxy.datatypes.binary:Binary"
> mimetype="application/zip" subclass="True" />
>
> The second part of the problem was to disable the HTML "download" link.
> And now we are back into customizing the HTML datatype...
>
>
>
> So long story short, if I want to customize what happens when a user
> clicks the download link of a given format, which methods should I be
> looking at?
>
> Can you think of any alternative (better) way to solve the original problem?
>
>
> Thanks,
> Renato
>
>
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