[galaxy-dev] config files in cloudman

Hi, the config/galaxy.ini is being overwritten when restarting Galaxy via the CloudMan Console. Unfortunately I can't find the file, that is used as template. I searched on the whole machine for "*.cloud", "galaxy.ini*" and "universe_wsgi.ini*". The only file I found was "/mnt/cm/installed_files/

[galaxy-dev] Repository installation error - missing

Hi, I have a custom tool_conf.xml in gbs_tools/gbs_tool_conf.xml It is added to the config and loaded without problems. "" But when I want to install tools from a toolshed (test and main) to it ("Shed tool configuration file"), it reports Error during installation. Clicking on the tool, it says

Re: [galaxy-dev] Data Collections

Thank you for this detailed descriptions! I already have a followup question. I'm working on Galaxy Cloudman: > Galaxy is at revision: 93cda3eb81 (master branch) from 11 Jun 2015) But I just can find "Build dataset pair|list", not "List of Dataset Pairs" like in the video. At what version is th

Re: [galaxy-dev] Data Collections

On Wed, Jun 10, 2015 at 4:04 PM, Alexander Vowinkel wrote: > Hi Folks, > > thank you so far for the previous help. I got much further. > Now I'm stuck with data collections. > > Because this is quite a list, I appreciate also answers to parts of my > questions ;) > > I have two issues: > A) manual

Re: [galaxy-dev] minor visual bug found when using Firefox

Yeah - I can confirm this. I don't know how to fix it though - Firefox and Chrome just render these data list elements differently. You can disable the drop down arrow in Chrome - but not enable it Firefox - and I like the default Chrome behavior better :(. I guess the correct thing to do here is a

Re: [galaxy-dev] functional tests / database lock

Not exactly - I feel like sqlite should be able to do the kinds of things Galaxy does without this occurring - it should just be inefficient. We are probably doing something across multiple threads that we should not be - presumably related to job handling. After a recent sqlalchemy upgrade - there

Re: [galaxy-dev] keep job output and scripts on failed tests

Hey Ryan, Thanks - this seems like a solid enhancement - I have opened a pull request for it here https://github.com/galaxyproject/galaxy/pull/341. -John On Fri, Jun 12, 2015 at 2:19 PM, Peter Cock wrote: > Hmm. > > That may need a tweak - using GALAXY_TEST_NO_CLEANUP > is not the default, so

[galaxy-dev] GalaxyAdmins Online Meetup this Thursday: Peter Briggs on Galactic Engineering at Manchester

Hello all, The June 2015 online GalaxyAdmins meetup will be this Thursday, 18 June, at 5pm Central European Time (see your local time ). Peter Briggs of the

[galaxy-dev] Download data by data manager with non generic ftp-proxy

Dear All, I have some problems with the download of genome files by the data manager. I tried to download some genome files from the UCSC server with the data manager of galaxy ( name: data_manager_fetch_genome_all_fasta, revision: cca219f2b212), but it fails because of a timeout. Our galaxy s