Camelia, the Perl 6 bug

IRC log for #bioperl, 2011-09-27

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All times shown according to UTC.

Time Nick Message
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19:14 pyrimidine rbuels, sheenams: ping(s)
19:15 rbuels pyrimidine: pong
19:15 pyrimidine rbuels: when do we want to talk re: bioperl restructuring?
19:16 rbuels hmmm
19:17 pyrimidine I can do it now, for a bit.  tomorrow is bad for me, but later in the week is good.
19:17 rbuels pyrimidine: yeah, i started writing a reply to your email and then got sidetracked by a bunch of other stuff
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19:18 rbuels pyrimidine: i can do it nowish if you give me a few minutes to tie up some loose ends
19:19 pyrimidine rbuels: ok
19:19 pyrimidine when you're ready, I have a few other things on the go as well
19:19 rbuels ok
19:20 rbuels pyrimidine: wanna skype or something, actually?  higher bandwidth.
19:20 pyrimidine rbuels: okay, will msg skype ID
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20:10 deafferret ..oo.. Oo
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20:10 paulinpgh hello all
20:10 paulinpgh i have a question/problem with SearchIO on multi-report blast output files
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20:31 deafferret very cool    :)    http://nric.nebraska.edu/conten​t2011/agenda/bioinf_miller.html
20:32 * deafferret wants to go to http://sourceforge.net/apps/mediawiki/w​gs-assembler/index.php?title=CAUG_2011
20:42 pyrimidine paulinpgh was a bit impatient
20:44 pyrimidine deafferret: we haven't tested celera assembler locally, using SOAPdenovo and a few others (and looking at a few new ones as well)
20:52 * deafferret can't get the damn thing to compile on OSX or Debian  :)
20:53 deafferret cvs? svn? really?   ;)
20:54 pyrimidine rbuels: moved the split-out git code to the modularization page: http://www.bioperl.org/wiki/BioPerl_Modularization
20:55 rbuels pyrimidine: ah, good idea
20:55 rbuels maybe i should just flesh out that page and then adapt it into an email format
21:00 pyrimidine yeah, that's probably best; maybe only summarize what's on that page.  I'm thinking about blogging about it as well.
21:10 deafferret docs are all labelled Celera CONFIDENTIAL and 1999  :)
21:10 * rbuels chuckles
21:10 deafferret and "I ran out of time"   :)
21:11 deafferret ooo! confidential from 2007!
21:12 * deafferret buys stock
21:29 * deafferret has flashbacks to ncbi repo
21:30 rbuels hehe
21:30 deafferret i get so EXCITED about bioinformatics. then i lift the hood and cry
21:31 rbuels (lift the hood?)
21:31 rbuels oh, like a car hood
21:31 rbuels a bonnet, if you will
21:31 * rbuels stuffs deafferret in the boot
21:31 deafferret ya. in this case its the celera assembler making me sad
21:32 * rbuels writes the BioPerl Modularization Manifesto
21:32 deafferret its a fucking mess or i'm not smart enough or both .... in any case it crushes my excitemtnt  :/
21:33 deafferret RIDB is sponsoring the BMM?
21:34 deafferret SNOMED is GOish universe of pain
21:34 pyrimidine we started using JCVI's sift code, which is perl.  If you think the assembler's bad, take a look at sift.  Hint: think of perl worst practices
21:36 * deafferret assumes that release 4.0.3b from aug fixed that
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