Question: Snpeff: Html Report Is Not Displaying After Update
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gravatar for Praveen Raj Somarajan
6.4 years ago by
Praveen Raj Somarajan100 wrote:
Hi All, I updated galaxy recently to the latest version. Everything looks fine, except snpEff report html view. It was displaying properly (all tables and summary values) before the update, but the summary values are not displaying after the update. A sample screen-shot is attached for your reference. Could you please figure out this issue? When I ran the same on command line, the reports were generated correctly. I assume, something (datatypes or preview) has changed by the update. Please let me know the work around on this? Secondly, as we know, snpEff also generates a gene-wise annotation file along with other results, but somehow we cannot access this file through Galaxy. Though we see the link in the html report, but it seems the path is broken. Let me know your suggestions. Best, Raj ________________________________ This e-mail contains PRIVILEGED AND CONFIDENTIAL INFORMATION intended solely for the use of the addressee(s). If you are not the intended recipient, please notify the sender by e-mail and delete the original message. Further, you are not to copy, disclose, or distribute this e-mail or its contents to any other person and any such actions that are unlawful. This e-mail may contain viruses. Ocimum Biosolutions has taken every reasonable precaution to minimize this risk, but is not liable for any damage you may sustain as a result of any virus in this e-mail. You should carry out your own virus checks before opening the e-mail or attachment. The information contained in this email and any attachments is confidential and may be subject to copyright or other intellectual property protection. If you are not the intended recipient, you are not authorized to use or disclose this information, and we request that you notify us by reply mail or telephone and delete the original message from your mail system. OCIMUMBIO SOLUTIONS (P) LTD
snpeff snp • 1.1k views
ADD COMMENTlink modified 6.3 years ago by Jennifer Hillman Jackson25k • written 6.4 years ago by Praveen Raj Somarajan100
0
gravatar for Jennifer Hillman Jackson
6.3 years ago by
United States
Jennifer Hillman Jackson25k wrote:
Hello Raj, This tool is from the Tool Shed and is maintained by the tool author. To contact them about functionality or problems, go to the Tool Shed at http://toolshed.g2.bx.psu.edu/, locate the repository (search by 'snpEff'), click on the name, in the the top far right corner locate the pull down menu "Repository Actions". Select "Contact repository owner" to send them a message. There have been many updates to Galaxy recently and it is possible that one of these had an impact on this tool. I am going to send your email to galaxy-dev@bx.psu.edu, to see if anyone else has had problems with this tool since the last distribution update. You may be asked to provide more information (be as specific as you can): the hg pull #, any customizations, python version, etc. Regards, Jen Galaxy team -- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org/wiki/Support
ADD COMMENTlink written 6.3 years ago by Jennifer Hillman Jackson25k
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