Camelia, the Perl 6 bug

IRC log for #bioperl, 2009-07-28

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All times shown according to UTC.

Time Nick Message
08:02 perl_splut joined #bioperl
12:35 faceface how to document a bunch of perl scripts (network of function calls for example)?
15:52 perl_splut POD
16:11 deafferret or encoded in DNA and encased in resin
16:11 deafferret POD is easier though
16:49 perl_splut and less mutable...
17:56 faceface joined #bioperl
18:33 faceface rbuels: ?
18:33 deafferret rbuels: !
18:34 rbuels unnggg
18:34 rbuels what
18:34 faceface ur email is null
18:34 rbuels faceface: where's my library information
18:34 rbuels what?
18:34 rbuels what email
18:34 deafferret the null one
18:34 rbuels eh?
18:34 rbuels where?
18:34 faceface rbuels: me can take it no longer!
18:34 rbuels lol
18:35 faceface er... thing is ... you didn'y reply... do you need info for JP / GB libraries?
18:35 rbuels ...
18:35 rbuels did one of my emails go missing i wonder?
18:35 * rbuels looks
18:36 faceface that's been happening a lot to me lately...
18:36 faceface I think the last one I sent was along the lines of 'lool duuuud! gar... lib... '
18:36 rbuels did you get the one i sent that began with 'oh heck' ?
18:36 rbuels lol
18:36 rbuels 7/22
18:36 rbuels was the email date
18:37 faceface hmm... thought I replied to you on that one...
18:37 faceface (apparently didn't)
18:37 rbuels oh, there's probably going to be an official #gmod channel
18:38 rbuels meaning, the empty #gmod i'm sitting in will get a chanserv
18:38 faceface quote me to ppl who know ... "Can you provide this information for the GB and JP libraries?"
18:38 faceface reply ....
18:38 rbuels repy: the sound of crickets?
18:38 faceface similar situation with the 454 data
18:38 faceface I even made a form for them to fill in for that!
18:38 faceface what more do they want!
18:39 * faceface remembers that the channel is logged
18:39 faceface that should be in the topic...
18:39 faceface (found out the hard way ;-)
18:40 faceface rbuels: given its only 6 BACs or so, can you fill in some values like ... [<humor>]
18:40 rbuels yeah that's what i was about to do, until you wandered in
18:41 rbuels and started shouting
18:41 rbuels lol
18:42 faceface ;-)
18:42 faceface sorry I'm not more help with your help!
18:47 * deafferret "helps"
18:47 rbuels lol
19:00 deafferret w t h ....  Uncaught exception:  Allocation failed, insufficient memory available, raised at merger.c:137
19:00 deafferret 349K merge into 2K ...
19:00 deafferret should be cake
19:00 * deafferret blames bioperl
19:00 rbuels is glusterfs slow?
19:01 deafferret w t h   is that
19:01 rbuels teh goggle is yur frend
19:01 rbuels but in short,
19:01 rbuels we're working on trying to get rid of our nfs at sgn
19:01 deafferret me glusters your fs
19:01 deafferret /
19:01 rbuels cause our nfs server is melting
19:02 rbuels regularly.
19:02 deafferret i c
19:02 rbuels o u do?
19:02 rbuels oooo oooo
19:02 deafferret install reiserfs! support your local penal system!
19:02 rbuels lol
19:02 deafferret PNAS!!!
19:02 rbuels PNAS!!!!!
19:03 rbuels (more exclamation points means louder)
19:03 deafferret PNAS uses reiserfs exclusively
19:03 rbuels really?
19:03 rbuels wow.
19:03 rbuels must be murder to maintain.
19:03 deafferret in my mind it does
19:03 deafferret *rimshot*
19:03 deafferret hey-o!
19:03 deafferret yes, sir!
19:03 rbuels hoo-ah.
19:10 faceface you can't beat reiserfs?
19:11 rbuels i don't know about the filesystem, but i bet its creator gets a beating from time to time now
19:13 deafferret reiserfs buries bodies in the Oakland hills automatically. http://en.wikipedia.org/wiki/​Hans_Reiser#Recovery_of_Nina.27s_body_and_sentencing
19:13 deafferret very convenient
19:14 rbuels i wonder if he kept a journal
19:14 rbuels and if the police recovered it
19:14 rbuels *rimshot*
19:15 deafferret mail order russian bride even
19:23 faceface its a fs that takes a battering
19:24 faceface you guys use the PDB
19:24 faceface ?
19:25 faceface The 50,000-th release is chorismate synthase from mycobacterium tuberculosis (2o12)!
19:25 faceface http://pdbwiki.org/index.php/50,000
19:25 faceface night
19:25 rbuels faceface: night
19:27 deafferret rbuels: liar. I know where you lurk.
19:27 rbuels i was bidding *him* a good night
19:27 rbuels while of course, we all know that for me it is about noon
19:27 deafferret I searched for 'good'. no results.
19:30 deafferret in complex with FMN ? what's FMN?
19:30 deafferret http://pdbwiki.org/index.php/2o12
19:31 deafferret release date 15 months ago? it takes 15 months to get into PDB?
19:31 rbuels it's all manually curated i think
19:31 rbuels not sure though
19:33 deafferret there's only 2973 atoms in this one. slackers.
19:54 kyanardag joined #bioperl
22:14 deafferret grep '>' all.fasta  | grep -v incomplete | cut -d' ' -f 2 | xargs -I JAY grep JAY acc_species.list | cut -d' ' -f 1 | cut -f2 | sort | uniq -c | sort -rn
22:17 rbuels ... JAY?
23:18 kyanardag_ joined #bioperl
23:53 deafferret of course. what other string would you use for xargs -I ? Something inferior to JAY?

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