You would have my vote too for this, is there a trello card for it?
Stef
- Original message - From: Lukasse, Pieter
pieter.luka...@wur.nl To: Ross ross.laza...@gmail.com
Cc: galaxy-dev@lists.bx.psu.edu galaxy-dev@lists.bx.psu.edu Subject:
Re: [galaxy-dev] filtering a param of type
Anyone else getting this when trying to upload to a testtoolshed repos?
I'm using the upload files to repository function in repository
actions and get a blank page with internal server error.. Worked fine
yesterday.
Ciao,
Stef
___
Please
Ok, works for me again. Just a little hiccup I guess...
Stef
- Original message -
From: Peter Cock p.j.a.c...@googlemail.com
To: Stef van Lieshout stefvanliesh...@fastmail.fm
Cc: Galaxy Dev galaxy-...@bx.psu.edu
Subject: Re: [galaxy-dev] testtoolshed internal server error
Date: Wed, 8
Hi all,
I'm trying to install R/bioconductor packages in galaxy and have trouble
with some of them.
I made a dependency package (package_qdnaseq_1_0_5 in the
testtoolshed) that should install several R (bioconductor) packages
using setup_r_environment and for each package the
It does works for me if I do exactly as described on that page
without using the universe_wsgi.ini option:
- I have the force_history_refresh
- I follow the exact file-name structure
(primary_id_somename_visible_filetype)
- I save the files in the dir from passed param
$__new_file_path__
of the name is
optional.
Stef
- Original message -
From: Martin Christiansen [1]martinchristianse...@hotmail.com
To: Stef van Lieshout [2]stefvanliesh...@fastmail.fm,
[3]galaxy-dev@lists.bx.psu.edu
[4]galaxy-dev@lists.bx.psu.edu
Subject: RE: [galaxy-dev] Multiple output datasets
with the exact format:
primary_id_somename_visible_filetype (eg
primary_546_output2_visible_bed)
Stef
- Original message -
From: Martin Christiansen [1]martinchristianse...@hotmail.com
To: Stef van Lieshout [2]stefvanliesh...@fastmail.fm,
[3]galaxy-dev@lists.bx.psu.edu
[4]galaxy-dev
...@hotmail.com
To: Stef van Lieshout [2]stefvanliesh...@fastmail.fm,
[3]galaxy-dev@lists.bx.psu.edu
[4]galaxy-dev@lists.bx.psu.edu
Subject: RE: [galaxy-dev] Multiple output datasets
Date: Wed, 27 Aug 2014 16:25:07 +0200
But where are the variables defined then?
Martin
thanks,
Stef
- Original message -
From: Kandalaft, Iyad iyad.kandal...@agr.gc.ca
To: Stef van Lieshout stefvanliesh...@fastmail.fm,
galaxy-dev@lists.bx.psu.edu galaxy-dev@lists.bx.psu.edu
Subject: RE: [galaxy-dev] R bioconductor dependencies when creating
toolshed installation
Date: Mon, 16
Any plans to create a R 3.1.0 repository?
Thanks,
Stef
___
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:
To: Stef van Lieshout stefvanliesh...@fastmail.fm,
galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] R bioconductor dependencies when creating
toolshed installation
Date: Tue, 17 Jun 2014 15:17:36 +0200
Hi Stef,
for R packages we have a special installation routine that will
(hapefully) make your
!
Stef
- Original message -
From: Björn Grüning bjoern.gruen...@gmail.com
To: Stef van Lieshout stefvanliesh...@fastmail.fm,
galaxy-dev@lists.bx.psu.edu, Dave Bouvier d...@bx.psu.edu
Subject: Re: [galaxy-dev] R bioconductor dependencies when creating
toolshed installation
Date: Tue, 17 Jun 2014
Hi all,
I'm running into some difficulties on how to setup the installation
procedure for a galaxy tool which executes an R script and has certain
dependencies (mainly bioconductor packages). R can deal with
dependencies, packages can be installed with install.packages (has a
dependencies
This might have to do with the fact that galaxy by default sanitizes
html, you can alter this behaviour with an option in universe_wsgi.ini
(but might compromise security):
# Sanitize All HTML Tool Output
# By default, all tool output served as 'text/html' will be sanitized
# thoroughly. This can
14 matches
Mail list logo
