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https://forum.ugene.net/forum/YaBB.pl General Category >> Bugs and Issues >> Any workarounds for bug: The external tools validation task fails with first failed scripting? https://forum.ugene.net/forum/YaBB.pl?num=1374590759 Message started by hoytpr on Jul 23^rd, 2013 at 9:45pm

Title: Any workarounds for bug: The external tools validation task fails with first failed scripting?
Post by hoytpr on Jul 23^rd, 2013 at 9:45pm

Is there a workaround to get the Cistrome folder and scripts working? I'm using 1.12.1. If there is a patch, please explain how to install it. Thanks. Wish I could help with bugs, but I'm not good at programming/scripting.
Great software you guys! Thank-you and I am working on getting a donation together.

(WinXP-Pro-x64, AMD Phenom II X6, 16Gb RAM, R version 2.11.1)

-p

Title: Re: Any workarounds for bug: The external tools validation task fails with first failed scripting?
Post by Olga Golosova on Jul 23^rd, 2013 at 10:43pm

Hi!

Yeah, the pipeline documentation is not ready yet. There are also going to be more tweaks on the Cistrome pipeline. It would be great if you will also participate in the pipeline testing :)

I recommend you to work on the latest snapshot instead of 1.12.1, it is even more updated: http://ugene.unipro.ru/snapshot.html

Some info about how to configure Cistrome and the data, required for it, can be found here: http://ugene.unipro.ru/ugene_niaid.html
However the docs here are a little obsolete. For example, there is no more need in installing the python tools (django and others) - they should be inside the "embedded python" external tool.

Regards,
Olga

Title: Re: Any workarounds for bug: The external tools validation task fails with first failed scripting?
Post by hoytpr on Jul 23^rd, 2013 at 11:12pm

Thanks, I'll try the snapshot and report back. I would be very happy to help in your pipeline testing. I could probably even help in a Linux environment (we use CentOS)... just not Macs-OSX.