[galaxy-dev] Removing job in error state

Hi - In the Manage Jobs admin job, I have a job from a user that never ran successfully. It shows: Job ID User Last Update Tool State Inputs Command Line Job Runner PID/Cluster ID 12772 u...@company.com 654 hours ago cshl_fastx_collapser new 13653 error None None None How do I remove this job? I

Re: [galaxy-dev] Galaxy URL and api key tool config

If you're talking to your local galaxy instance, from within a tool, (especially for 'internal-only' tools) you /could/ just talk to the database. However, perhaps you could give an example of what you wish to do and maybe there are more generic ways to do this? Cheers, Eric On 03. aug. 2016 18:5

[galaxy-dev] Galaxy URL and api key tool config

Hi everyone, I was wondering if anyone knew how to pass the url of your galaxy instance to a tool as well as a way to authenticate so I could use the bioblend api within my tool? Thanks, Katherine ___ Please keep all replies on the list by usi

Re: [galaxy-dev] Deprecated code file tag

On Wed, Aug 3, 2016 at 11:36 AM, Katherine Beaulieu < katherine.beaulieu...@gmail.com> wrote: > Ok thanks for the information! > > On Wed, Aug 3, 2016 at 11:21 AM, Eric Rasche wrote: > >> Hi Katherine, >> >> There is unfortunately no direct replacement to code files (but I hear it >> might still

Re: [galaxy-dev] tool runner

On Wed, Aug 3, 2016 at 11:35 AM, Katherine Beaulieu < katherine.beaulieu...@gmail.com> wrote: > Generally what I've found is that you have to go to another html page and > in that page's html code you have to specify to go back to galaxy and your > tool wrapper should take care of submitting to th

Re: [galaxy-dev] Deprecated code file tag

Hi Katherine, There is unfortunately no direct replacement to code files (but I hear it might still work...if you have internal-only tools, that might be an option). I have the exact same use case as you but do not have a clean Galaxy solution to offer. I've opened an issue on github

[galaxy-dev] tool runner

Dear all, I created a tool in html +pytho, like for the UCSC. My tool is doing a process then return a confirmation of the success of the job. I 'm blocked at the point that I saw that I have to put method="get" but how to tell to Galaxy to run the job and submit on my history the process. Is t

[galaxy-dev] Deprecated code file tag

Hi everyone, I can't remember where I came across this but I read somewhere that the ___ 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

Re: [galaxy-dev] Galaxy history UI suggestion

Hi Bongsoo The 'View all histories' tool (the function to the right of the 'History options' wheel) is a good alternative to the 'Saved Histories' page. Regards, Hans-Rudolf On 08/02/2016 10:26 PM, Bongsoo Park wrote: Hello, In the saved histories, the selected page goes to the first page