Did you try what was suggested below in my reply 5 days ago?
Jun 29 (5 days ago)
to azuzologalaxy-dev
Hi, Amanda,
If your previous version was very old, it may have lacked a parameter added to universe_wsgi.ini some time ago to control universal "sanitization" of HTML as a security precaution on public sites. If it's not already there, could you try adding

sanitize_all_html = False

to your universe_wsgi.ini and restart Galaxy to see if that fixes the problem please? If not, please let us know and we'll try to help figure out what's going on.


On Wed, Jul 3, 2013 at 8:23 PM, Amanda Zuzolo <azuzolo@masonlive.gmu.edu> wrote:
I recently updated my local testing Galaxy install to the latest stable version. When I went to test the working of HTML output in some scripts that worked in previous installs of Galaxy, the latest stable version gave me an empty return with a message of 'no peek' rather than outputting the HTML file with the embedded Javascript functionality. Additionally, the HTML output from previous runs of the same tool no longer shows the Javascript file/functionality when opened from the eye button in Galaxy, but still works fine from the HTML file opened out of the file directory.

Any assistance on this issue would be greatly appreciated.

--
Amanda Zuzolo
Bioengineering Major, George Mason University
Metabiome Informatics Group, Environmental Biocomplexity

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--
Ross Lazarus MBBS MPH;
Head, Medical Bioinformatics, BakerIDI; Tel: +61 385321444
http://scholar.google.com/citations?hl=en&user=UCUuEM4AAAAJ