Question: Trinity still not working 05-05-2017
0
bcking2 • 20 wrote:
Its still not working.
Not working, help! I have emailed you this several times and your last post on 4-28-2017 assured me it would be fine. See the screen shot. It is not fine. Cant check version number error.
Brian
ADD COMMENT
• link
•
modified 18 months ago
by
Jennifer Hillman Jackson ♦ 25k
•
written
19 months ago by
bcking2 • 20
Hi Brian, We are rerunning more test runs (all test runs passed last Thursday). I cannot see your graphic, but have found your account and am reviewing it. From the first look, the input fastq reads do not look to be of high-quality and the error indicates that there were no assembly results prior to the stage that failed. I am running FastQC on the inputs to see what is going on. You could do the same (and should be doing this for any dataset, for any workflow, that you haven't already screened/prepped).
How to interpret FastQC reports: https://galaxyproject.org/tutorials/ngs/#fastq-manipulation-and-quality-control
NGS read QC/QC training tutorial: http://galaxyproject.github.io/training-material/NGS-QC/
So you know, the message
-ERROR: couldn't run the network check to confirm latest Trinity software version.is just a warning message now, it will not trigger a failed run by itself.We apologize for the problems with the connection (the prior problem). This is mostly out of our control but improvements have been made (and is why the tool is still labeled as "beta"). We definitely appreciate the feedback about problems. The tuning we'll do to promote the tool off of beta: fix any issues server side, include more usage help on the tool form (input problems are contributing to failures and many do not know how to interpret the log), plus create a training tutorial that includes assembly with Trinity to provide examples/sample data.
Thanks - feedback soon. Jen, Galaxy team