[sage-support] Re: simple way to link libraries to .pyx in sage?
On May 21, 2008, at 4:21 PM, tkeller wrote: Hi folks, Let me say from the start that I've really enjoyed stumbling across sage; it's been a good motivator to learn more python. One thing I've been thinking about recently was adapting a evolutionary simulation project written in c to python. The crux I've reached is that it depends on a C library called ViennaRNA. Wrapping libraries is new to me, but after stumbling through for a day I got the functions I needed working in cython, which I then installed to my regular python distro. My question is: Is there an easy way to load .pyx files in sage that require a linked library or install in a similar fashion to regular python ala distutils? There is not yet a way to specify this in the .pyx file itself, but it has been discussed and would be nice. All I came across in the docs was adding the module to the giant sage setup.py and then rebuilding with sage -br. I'm currently doing this and have every expectation for it to work, but it seems a bit ungainly, since it has to rebuild all of the modules. It only needs to rebuild all the modules once (which will be the first time you do sage -br if you downloaded a binary build), after that it will only build the needed ones. Or is it trying to rebuild the entire thing every time? - Robert --~--~-~--~~~---~--~~ To post to this group, send email to sage-support@googlegroups.com To unsubscribe from this group, send email to [EMAIL PROTECTED] For more options, visit this group at http://groups.google.com/group/sage-support URLs: http://www.sagemath.org -~--~~~~--~~--~--~---
[sage-support] Re: simple way to link libraries to .pyx in sage?
You were correct, it doesn't try to rebuild everything, just modules that have changed. However, I am now getting the following error message: running build_ext building 'pyrna' extension error: unknown file type '.pyx' (from 'pyrna.pyx') sage: There was an error installing modified sage library code. This error didn't occur during the first, complete build. The only thing I changed was adding a dummy function so that it would rebuild the module. Removing it doesn't affect the error, so I don't think it is that. Thomas On May 21, 6:46 pm, Robert Bradshaw [EMAIL PROTECTED] wrote: On May 21, 2008, at 4:21 PM, tkeller wrote: Hi folks, Let me say from the start that I've really enjoyed stumbling across sage; it's been a good motivator to learn more python. One thing I've been thinking about recently was adapting a evolutionary simulation project written in c to python. The crux I've reached is that it depends on a C library called ViennaRNA. Wrapping libraries is new to me, but after stumbling through for a day I got the functions I needed working in cython, which I then installed to my regular python distro. My question is: Is there an easy way to load .pyx files in sage that require a linked library or install in a similar fashion to regular python ala distutils? There is not yet a way to specify this in the .pyx file itself, but it has been discussed and would be nice. All I came across in the docs was adding the module to the giant sage setup.py and then rebuilding with sage -br. I'm currently doing this and have every expectation for it to work, but it seems a bit ungainly, since it has to rebuild all of the modules. It only needs to rebuild all the modules once (which will be the first time you do sage -br if you downloaded a binary build), after that it will only build the needed ones. Or is it trying to rebuild the entire thing every time? - Robert --~--~-~--~~~---~--~~ To post to this group, send email to sage-support@googlegroups.com To unsubscribe from this group, send email to [EMAIL PROTECTED] For more options, visit this group at http://groups.google.com/group/sage-support URLs: http://www.sagemath.org -~--~~~~--~~--~--~---
[sage-support] Re: simple way to link libraries to .pyx in sage?
On May 22, 2:04 am, tkeller [EMAIL PROTECTED] wrote: Hi Thomas, You were correct, it doesn't try to rebuild everything, just modules that have changed. However, I am now getting the following error message: running build_ext building 'pyrna' extension error: unknown file type '.pyx' (from 'pyrna.pyx') sage: There was an error installing modified sage library code. Do you link any C/C++ glue code in there? Can you post the exact code you use to build the extension? Often this is solved by touching the extension that setup.py complains about. This error didn't occur during the first, complete build. The only thing I changed was adding a dummy function so that it would rebuild the module. Removing it doesn't affect the error, so I don't think it is that. Thomas SNIP Cheers, Michael --~--~-~--~~~---~--~~ To post to this group, send email to sage-support@googlegroups.com To unsubscribe from this group, send email to [EMAIL PROTECTED] For more options, visit this group at http://groups.google.com/group/sage-support URLs: http://www.sagemath.org -~--~~~~--~~--~--~---
