This was addressed in 6788:e58a87c91bc4. The reason for the initial change that's causing these display issues was to eliminate potential XSS vulnerabilities. There's now a configuration option (sanitize_all_html, which is True by default) for local instances where you can disable the extra html sanitization.
-Dannon On Mar 8, 2012, at 10:33 AM, John David Osborne wrote: > Hi Pablo, > > About 3 weeks ago Praveen mentioned a bug in SNPEff such that it no longer > correctly displays the HTML report in galaxy – we have the exact same error. > Is there a workaround for this yet? I found his original report here: > http://article.gmane.org/gmane.science.biology.galaxy.user/2418 > > The report looks great when generated from the command line or even if the > files from galaxy are copied over to a local machine and displayed. However > in galaxy it appears that the supplementary data file (for example > dataset_41.dat.genes.txt) from the original dataset_41.dat is not accessible > to the main html file although I can copy it off the server. Perhaps the data > file it is being called from elsewhere at this is a path related issue? The > html looks for the data file in the same directory which I think is quite > reasonable. > > I'm not sure which galaxy update broke this, but it is definitely broken and > I'm guessing any efforts to display html reports in galaxy that involve other > supplementary data files may be broken too…. > > -John > > ___________________________________________________________ > Please keep all replies on the list by using "reply all" > in your mail client. To manage your subscriptions to this > and other Galaxy lists, please use the interface at: > > http://lists.bx.psu.edu/ ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
