Re: [galaxy-dev] Subtleties of and escaping dollar signs

2015-09-14 Thread John Chilton
I would say it is a ways off yet, it doesn't even validate all proper XML yet, let alone have proper documentation tags. I was hoping adding the validation feature to planemo would spur some development on it, but it hasn't happened yet. Some people are trying it out though

Re: [galaxy-dev] Opening Galaxy with a specified History Name

2015-09-14 Thread John Chilton
It looks like you can specify a tool or workflow to jump straight to but not a history. The following pull request (https://github.com/galaxyproject/galaxy/pull/725) extends this functionality to include histories. You will need the encoded history ID as returned by the workflow and history API

[galaxy-dev] simplifying Galaxy interface to the max (zen-like)

2015-09-14 Thread Piotr Grabowski
Dear Galaxy-Devs, I am developing a tool for biologists, I managed to integrate it with Galaxy (it's a KNIME/R-based machine learning workflow). This tool doesn't require a lot of interaction from the user - just a list of IDs pasted-in and maybe 1-2 text entry fields - then it's just Execute.

Re: [galaxy-dev] FastQC galaxy issue

2015-09-14 Thread Hakeem Almabrazi
Hi, I think it can. I tried it from command line and it worked. -Original Message- From: Björn Grüning [mailto:bjoern.gruen...@gmail.com] Sent: Saturday, September 12, 2015 11:19 AM To: Hakeem Almabrazi; Bjoern Gruening; galaxy-dev@lists.galaxyproject.org Subject: Re: [galaxy-dev]