On Fri, Jul 17, 2009 at 10:07 AM, Namshin Kim <[email protected]> wrote:
> > > On Fri, Jul 17, 2009 at 10:04 AM, Christopher Lee <[email protected]>wrote: > >> >> >> On Jul 16, 2009, at 5:46 PM, Namshin Kim wrote: >> >> > Python2.4 and latest Pyrex give errors, not different version of >> > output. Correct output (Collection and SQLTableClustered versions >> > are same) is from Python2.5 and latest Pyrex. I think we may have to >> > downgrade Pyrex if we want to use Python2.4. >> >> By "errors" do you mean it raises a Python exception? Or do you mean >> the results are incorrect? >> > > > I mean NLMSA returns fake objects with negative coordinates. It happens > only when I run megatest by Python2.4 and latest Pyrex. > > > >> >> > >> > >> > By the way, could you possibly push all the changes you've recently >> > made to megatest code to GitHub, for the benefit of those without >> > direct access to our new megatest machine? >> > >> > I had updated two database tables (pygr_snp126_hg18 and >> > pygr_snp126_chrY_hg18) and three pre-calculated output files. The >> > only thing we need to update is to get rid of "sys.exit" in >> > annotation_hg18_megatest.py. I will update downloadable files in >> http://biodb.bioinformatics.ucla.edu >> > . >> >> Namshin, if any changes in megatest source code are involved, please >> make them in a new git branch (presumably starting from Marek's >> megatests branch) and push them to your github repository. If you >> have questions about using git to do this see our cheat-sheet: >> http://code.google.com/p/pygr/wiki/UsingGit >> > > > OK. I will. I am now spending more time on pygr than before. > The "sys.exit()" in annotation_hg18_megatest.py has been removed and replaced by logger.warn I made my megatests branch: nkim/megatests for this change. > > > >> >> -- Chris >> >> >> >> > --~--~---------~--~----~------------~-------~--~----~ You received this message because you are subscribed to the Google Groups "pygr-dev" group. To post to this group, send email to [email protected] To unsubscribe from this group, send email to [email protected] For more options, visit this group at http://groups.google.com/group/pygr-dev?hl=en -~----------~----~----~----~------~----~------~--~---
