Re: [galaxy-dev] API question: is it possible to start exporting histories

2013-09-09 Thread Joachim Jacob | VIB |
OK, I would like to see that happen too :-) I have been thinking about possible 'elegant' solutions to enable this exporting. I am very enthousiastic about Bittorrent Sync, which could perhaps be an efficient and secure way to export the histories

[galaxy-dev] View Tool Wrapper Code without Installing

2013-09-09 Thread Richard Kuo
Hello, Is there a way to see the code for the tool wrappers in the tool shed without downloading them? I seem to remember that you used to be able to see the xml and other code before but now it looks like you just have to install directly from the tool shed. Thank you, Richard

Re: [galaxy-dev] View Tool Wrapper Code without Installing

2013-09-09 Thread Bjoern Gruening
Hi Richard, you can navigate to the 'repository actions' - 'Browse repository tip files' and have a look at all files in the latest revision of your tool. Cheers, Bjoern Hello, Is there a way to see the code for the tool wrappers in the tool shed without downloading them? I seem to

[galaxy-dev] Circumvent Show all button

2013-09-09 Thread Gromobir
Hey guys, Just one short question: Is there any way to circumvent the Show all dialog within galaxy, if the data I would like to display is too large? I would like to display some xhtml files, which can really have a lot of lines and I don't want the users of my tool to click on this button every

[galaxy-dev] Resolving requirement type binary and python-module

2013-09-09 Thread Hans-philipp Brachvogel
Hi all, we run galaxy on a cluster and real user job sumission (via DRMAA). The problem is getting the Galaxy standard tools to work with environment-module. We use environment-modules to fit the environment to the needs of a job and want to do the same for galaxy jobs. I highly expect

Re: [galaxy-dev] Resolving requirement type binary and python-module

2013-09-09 Thread Dave Bouvier
Phil, Galaxy uses a number of ways to resolve tool dependencies, some of which may be useful in your situation: 1. If a tool dependency entry exists in the database that matches the name, type, and version, it attempts to load

[galaxy-dev] questions on Galaxy installation under Apache

2013-09-09 Thread Jingchao Zhang
Hello everyone, I installed both Galaxy and Apache in a Red Hat linux machine and they work fine individually. If I open http://localhost then a welcome page comes out showing the httpd is working. In galaxy I changed host=0.0.0.0 and sh run.sh, then the http://localhosthttp://localhost/:8080

Re: [galaxy-dev] questions on Galaxy installation under Apache

2013-09-09 Thread Adam Brenner
Jim, You need to enable Apache's proxy service. See my pervious post here: http://dev.list.galaxyproject.org/Running-Galaxy-through-Apache-td4659452.html Let us know if you run into further issues, -Adam -- Adam Brenner Computer Science, Undergraduate Student Donald Bren School of Information

Re: [galaxy-dev] Large files in blend4j

2013-09-09 Thread John Chilton
Glad to hear blend4j is working well, annoyed to here it is not streaming files out by default. Based on your ideas I started some work here, but it is not right. I spent the last half an hour looking around Galaxy trying to figure out why history creation via the API was broken, not realizing it