Re: [galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-23 Thread Björn Grüning
Hi Dave, > Björn, > > I've uploaded the modified tool_dependencies.xml to devteam's > package_emboss_5_0_0 repository on the test tool shed, and verified that > it works. Again, thank you for your contributions. Great, thanks! > --Dave B. > > On 7/7/13 18:59:57.000, Björn Grüning wrote:

Re: [galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-23 Thread Dave Bouvier
Björn, I've uploaded the modified tool_dependencies.xml to devteam's package_emboss_5_0_0 repository on the test tool shed, and verified that it works. Again, thank you for your contributions. --Dave B. On 7/7/13 18:59:57.000, Björn Grüning wrote: Hi Greg, bitbucket has a downtime so I

Re: [galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-08 Thread Greg Von Kuster
Hello Björn, Thanks very much for the patch - I've committed alsightly alterered verson of it in changetset 10204:afec613d77fa which is currently running on the test tool shed. Greg Von Kuster On Jul 7, 2013, at 6:59 PM, Björn Grüning wrote: > Hi Greg, > > bitbucket has a downtime so I hav

Re: [galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-08 Thread Greg Von Kuster
I'll soon be committing a slightly altered version of your patch which includes a language attribute for the template_command action type. On Jul 8, 2013, at 10:02 AM, Björn Grüning wrote: > Hi James, > >> It probably makes sense to specify the template type in this case. >> Maybe an addition

Re: [galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-08 Thread Björn Grüning
Hi James, > It probably makes sense to specify the template type in this case. > Maybe an additional attribute, language='cheetah' ? My first suggestion was to reflect the template engine. I'm fine with both. > On Sun, Jul 7, 2013 at 1:19 PM, Björn Grüning > wrote: > > > > #if env.get('X

Re: [galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-08 Thread James Taylor
It probably makes sense to specify the template type in this case. Maybe an additional attribute, language='cheetah' ? On Sun, Jul 7, 2013 at 1:19 PM, Björn Grüning wrote: > > #if env.get('X11_LIB_DIR', False) and env.get('X11_INCLUDE_DIR', False): >./configure --prefix=$env.INST

Re: [galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-07 Thread Björn Grüning
Hi Greg, bitbucket has a downtime so I have attached a patch. I will create tomorrow a pull request if I find time. It will work as described and we have now a new variable (__is64bit__) that we can use to determine if python is running under 64bit (assuming that the rest is also 64bit-ish). Att

Re: [galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-07 Thread Greg Von Kuster
Hi Björn, This is great. A pull request or a patch is fine. Whatever one is most convenient for you. The code doesn't have to be pretty, just functional. We can always pretty it up later. Thanks very much for doing this! Greg On Jul 7, 2013, at 1:19 PM, Björn Grüning wrote: > Hi Greg,

Re: [galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-07 Thread Björn Grüning
Hi Greg, > Hello Björn, > > This would be great! I'm not sure about the type attribute - type="cheetah_command" may be ok, but maybe a more generic type like type="template_command" would be better. > I'm not quite sure, so go with what you feel is best. I come up with the following:

Re: [galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-07 Thread Greg Von Kuster
Hello Björn, This would be great! I'm not sure about the type attribute - wrote: > Hi, > > I was thinking how to tackle the build failures like the atlas library > on OS-X or the ones from xlib and ease the writing of the shell_command > a little bit. > > Dave B did some fancy shell scripting

[galaxy-dev] RFC: Cheetah template in tool_dependencies.xml

2013-07-07 Thread Björn Grüning
Hi, I was thinking how to tackle the build failures like the atlas library on OS-X or the ones from xlib and ease the writing of the shell_command a little bit. Dave B did some fancy shell scripting in 'package_emboss_5_0_0' and I was also sometimes forced to use some bash tricks. What about to