Ah, it turned out that "Galaxy ToolFactory" was the answer to my needs:

// Samuel

On 12/19/2012 12:46 PM, Samuel Lampa wrote:

What extension were you working on? Something that's available on the tool shed [1]? :)

... I'm looking into displaying some images from some analyses as well, and would be interested to have a look at the code.

// Samuel

[1]  http://toolshed.g2.bx.psu.edu/

On 02/17/2012 05:33 AM, Nikhil Joshi wrote:
Well, I guess I figured it out... it turns out that galaxy does some
internal magic to automatically add the path of the output directory
to the filename when it is rendering the html.  So what I needed to do
was to create the file in the temporary job directory and then just
use the file name without any path information in the html and galaxy
does the rest.  If anybody has any other advice or pitfalls to avoid,
please feel free to let me know.

- Nik.

On Thu, Feb 16, 2012 at 8:15 PM, Nikhil Joshi <najo...@ucdavis.edu> wrote:
Hi all,

I am having trouble producing HTML output with images.  In the past I
have been able to produce HTML files with no images and it seemed to
work fine.  However, now I am writing a script that produces
diagnostic images and I want to display all of the images on one page
using HTML.  I am using the "files_path" variable to create the plots
in the working directory, and then I am using the "extra_files_path"
variable to access the final plot from the html file.  I look at the
resulting HTML files and it points to the proper plot full path, and
the plot DOES exist... but when I click to view the output, the plot
doesn't render.  It just shows an empty box with a "broken image"
icon, however, the text does render.  I copy the plot file, and I can
view it fine by itself.  I copy the plot and the html and I can view
the page just fine offline, but galaxy doesn't want to render the
image for some reason.  What am I doing wrong?

- Nik.

Nikhil Joshi
Bioinformatics Programmer
UC Davis Genome Center
Davis, CA

Developer at SNIC-UPPMAX www.uppmax.uu.se
Developer at Dept of Pharm Biosciences www.farmbio.uu.se

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