Re: [galaxy-dev] Redirecting to a URL and breaking the frameset

2013-01-21 Thread Jeremy Goecks
> On 21/01/13 15:26, Paul Boddie wrote: >> On 21/01/13 15:16, Jeremy Goecks wrote: >>> Adding the attribute >>> >>> target="_top" >>> >>> to your URL will load the URL in the main browser window rather than a >>> frame. E.g. >>> >>> Load result in top window >> >> But in the Python code itself

Re: [galaxy-dev] Job handler keeps crashing

2013-01-21 Thread Derrick Lin
Thanks Nate, I tried that commit and seems it fixes the issue. Thanks Derrick On Tue, Jan 22, 2013 at 7:50 AM, Nate Coraor wrote: > Hi all, > > The commit[1] that fixes this is not in the January 11 distribution. > It'll be part of the next distribution. > > --nate > > [1] > https://bitbuck

Re: [galaxy-dev] Job handler keeps crashing

2013-01-21 Thread Nate Coraor
Hi all, The commit[1] that fixes this is not in the January 11 distribution. It'll be part of the next distribution. --nate [1] https://bitbucket.org/galaxy/galaxy-central/commits/c015b82b3944f967e2c859d5552c00e3e38a2da0 On Jan 21, 2013, at 3:10 PM, Anthonius deBoer wrote: > I have seen thi

Re: [galaxy-dev] Job handler keeps crashing

2013-01-21 Thread Anthonius deBoer
I have seen this same issue exactly. Python just dies without any errors in the log. Using the latest galaxy-dist Sent from my iPhone On Jan 20, 2013, at 8:35 PM, Derrick Lin wrote: > Update to the 11 Jan 2013 dist does not help with this issue. :( > > I checked the database and have the look

Re: [galaxy-dev] local install problem with fasta manipulation tools?

2013-01-21 Thread Elizabeth Clare
Hi Jeremy, Two things confuse me about this. First, the tools I want to use are not listed under the list of tools with dependencies.. but I still need to install? what is the difference then between tools with dependencies and all the others? Second, in the instructions it suggest that nothing s

[galaxy-dev] Upload file from url

2013-01-21 Thread Zinonas Antoniou
Hello, I want to upload a file from a script. A user will select a file, and the full path of the file will be saved, like http://www.example.com/myfile.csv I want to run the upload module of galaxy to save this file from the http path to galaxy. Do you have any suggestions please? Thank yo

Re: [galaxy-dev] Redirecting to a URL and breaking the frameset

2013-01-21 Thread Paul Boddie
On 21/01/13 15:26, Paul Boddie wrote: On 21/01/13 15:16, Jeremy Goecks wrote: Adding the attribute target="_top" to your URL will load the URL in the main browser window rather than a frame. E.g. Load result in top window But in the Python code itself? I'm writing an action in the user c

Re: [galaxy-dev] Redirecting to a URL and breaking the frameset

2013-01-21 Thread Paul Boddie
On 21/01/13 15:16, Jeremy Goecks wrote: Adding the attribute target="_top" to your URL will load the URL in the main browser window rather than a frame. E.g. Load result in top window But in the Python code itself? I'm writing an action in the user controller that should redirect to the ma

Re: [galaxy-dev] Redirecting to a URL and breaking the frameset

2013-01-21 Thread Jeremy Goecks
Adding the attribute target="_top" to your URL will load the URL in the main browser window rather than a frame. E.g. Load result in top window Best, J. On Jan 21, 2013, at 7:24 AM, Paul Boddie wrote: > Hello, > > Is there a convenient recipe for redirecting to a URL and breaking the > fr

Re: [galaxy-dev] Visualise Galaxy workflows using graphviz

2013-01-21 Thread Jeremy Goecks
> please find attached a small patch that add the gen_image() > functionality to the export-workflow UI. Thanks for the contribution. I committed a modified version of it: https://bitbucket.org/galaxy/galaxy-central/commits/0e064a23864c846483b35f893cf0a769dedf24f1 Specifically, I (a) used gen_im

Re: [galaxy-dev] Bug in handling user job limits (due to dynamic job runner code?)

2013-01-21 Thread Nate Coraor
Hi Lance, I'm rewriting much of this code, I should have all of it committed (including this fix) some time this week. Thanks for figuring out exactly what's going on here. --nate On Jan 18, 2013, at 5:28 PM, Lance Parsons wrote: > Just an update on this issue. Upon further investigation, it

[galaxy-dev] Redirecting to a URL and breaking the frameset

2013-01-21 Thread Paul Boddie
Hello, Is there a convenient recipe for redirecting to a URL and breaking the frameset? I have been trying to use trans.response.send_redirect with a variety of URLs, either something as simple as url_for("/") or as complicated as a url_for invocation with lots of arguments, but the resulting