Re: [galaxy-dev] Working on the admin interface: JS vs Mako

Hi, Galaxy is implementing frontend with the help of these libraries: https://github.com/galaxyproject/galaxy/tree/dev/client/galaxy/scripts/libs Notably the MV-paradigm is being implemented in Backbone. Good examples of applications/pieces that are written in JS are at

Re: [galaxy-dev] Working on the admin interface: JS vs Mako

Super, thanks Martin. I will dive into these links soon and please excuse any obvious questions from me in the process. Thanks, Z On Mon, Feb 1, 2016 at 10:36 PM, Martin Čech wrote: > Hi, > > Galaxy is implementing frontend with the help of these libraries: >

[galaxy-dev] Get data via the cloud?

Hi all, Of course, we need to upload large data files. I understand that the common way to achieve this is with an FTP server, but due to our situation setting one up is problematic. Does Galaxy have any mechanism for retrieving data from cloud resources such as Dropbox, Box, or Google Drive?

Re: [galaxy-dev] Get data via the cloud?

Hi Scott, Galaxy can retrieve data from any publicly available URL. Just paste the URL into the upload modal using the 'paste/fetch data'. This probably won't work with some of the services as they won't serve you content without visiting their site. But it works with e.g. dropbox if you add

Re: [galaxy-dev] Working on the admin interface: JS vs Mako

Hi All In terms of the future, are we using or considering using any JS SPA frameworks or the route is plain JavaScript? I ask as we aim to satisfy our pursued RESTful architecture. Thanks Zipho On Mon, Feb 1, 2016 at 7:30 PM, Peter van Heusden wrote: > Yeah I noticed

[galaxy-dev] Picard tools don't include CreateSequenceDictionary?

Hello all, I have some biologists here at Notre Dame who use the Picard Tools CreateSequenceDictionary application as part of their workflow. I've tried to locate it in the toolshed but all the Picard Tools versions that are available don't seem to include it. Does anyone know where I might find

Re: [galaxy-dev] Picard tools don't include CreateSequenceDictionary?

Hi Nicola, Thank you very much! I'm checking with my biologists to see if any of those tools will work out for us. I'll be sure to open an issue if not. Best, Scott On Mon, Feb 1, 2016 at 10:58 AM, Nicola Soranzo wrote: > Hi Scott, > it seems that devteam's picard

Re: [galaxy-dev] Galaxy sending jobs to multiple clusters

Hi Nikolay, The slurm branch that John mentioned sounds great! That might be your best bet. I didn't get drmaa to run with multiple clusters with flags, but I did 'assign' different job handlers to different destinations in the drmaa.py runner in Galaxy - but that is a bit of a hacky way to do

Re: [galaxy-dev] Working on the admin interface: JS vs Mako

Yeah I noticed that about the DependencyResolversView. In terms of writing JS - where's a good example to look at? I tried digging around the client/ directories but couldn't make sense of how it works. Thanks, Peter On 1 February 2016 at 16:48, John Chilton wrote: >

Re: [galaxy-dev] Current state of cloudman etc. within private AWS VPCs?

We are working in this as well and have something functioning. I'll leave it to Matt to give you the details as he's the one whose got it up and running. Please excuse any typos -- Sent from my iPhone On Jan 29, 2016, at 1:27 PM, Enis Afgan > wrote:

Re: [galaxy-dev] Galaxy sending jobs to multiple clusters

Nate has a branch of slurm drmaa that allows specifying a --clusters argument in the native specification this can be used to target multiple hosts. More information can be found here: https://github.com/natefoo/slurm-drmaa Here is how Nate uses it to configure usegalaxy.org:

Re: [galaxy-dev] Running Galaxy jobs remotely via ssh / rsh

I guess LIBTORQUE should be /root/torque-6.0.0.1-1449528029_21cc3d8 then, the default permissions on /root may be too restrictive - you may have to install this to a more traditional location such as /usr/local/lib or /opt. -John On Wed, Jan 20, 2016 at 10:32 PM, D K