Camelia, the Perl 6 bug

IRC log for #bioperl, 2009-04-24

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All times shown according to UTC.

Time Nick Message
00:58 rbuels joined #bioperl
01:04 ptl joined #bioperl
04:18 elTigre joined #bioperl
10:49 elTigre joined #bioperl
11:31 elTigre joined #bioperl
14:02 faceface hi
14:02 faceface seems strange that Bio::SeqIO::Qual dosn't support 'clearrange' or someethign like that
14:03 faceface Bio::Seq::Quality
14:27 faceface lets see if I can do it ;-)
14:41 rbuels joined #bioperl
15:56 rbuels_ joined #bioperl
16:12 faceface hi rbuels_
16:12 rbuels_ hi
16:13 faceface I emailed you by mistake the other day ;-)
16:13 rbuels_ oh, it's the potato man
16:13 faceface yay
16:13 rbuels_ indeed you did
16:13 faceface thats mr potato to you ;-)
16:13 rbuels_ and then you emailed lukas purposefully
16:13 faceface yup
16:13 rbuels_ and made more work for me :-)
16:14 faceface sadly I have to go just now, I'd like to talk over the 'requirements' with you
16:14 rbuels_ it's good though, we need to generalize our BAC tracking for multiple species
16:14 faceface (I have about 1 min !)
16:14 faceface cool
16:14 rbuels_ OK that's fine
16:14 rbuels_ i hang out here all the time
16:14 rbuels_ ttyl
16:14 faceface The PI's here seem generally in agreement that its something to go forward with
16:14 faceface great
16:14 faceface the problem will be the physical map, which is 'behind closed doors'
16:15 faceface however, perhaps the PGP that we build from it can be shared (who knows tbh)
16:15 rbuels_ in .nl i bet
16:15 rbuels_ the physical map?
16:15 faceface getting the FPC output is unlikely afaict
16:15 faceface (but I'm not up on the whole politics of the group)
16:15 faceface yeah
16:15 faceface how did you guess?
16:15 rbuels_ they love closed doors
16:16 rbuels_ at wur.nl
16:16 faceface sigh
16:16 faceface nice to meet you face to face so to speak! :D
16:16 faceface its a funny world!
16:16 rbuels_ likewise
16:16 faceface chat to you later
16:16 rbuels_ have a good one
16:16 faceface ty
16:16 rbuels_ i'm also in #cxgn on perl.irc.corg
16:16 rbuels_ i mean
16:16 rbuels_ irc.perl.org
16:17 rbuels_ bye
16:38 deafferret what's cxgn?
16:41 rbuels_ it's sgn.cornell.edu's notional channel
16:41 rbuels_ notional meaning that noboy is really using it yet
16:42 rbuels_ and the only thing that keeps it open is me
16:42 rbuels_ cxgn is the top-level module namespace we use at sgn.cornell.edu
16:44 deafferret ah. like irc.ist.unomaha.edu #uno  :)
16:44 rbuels_ is there a GMOD irc channel?
16:45 deafferret everyone should have one channel they keep alive for no reason  :)
16:45 deafferret not that I'm aware of
16:45 rbuels_ yeah, i find that #cxgn gives me a sense of completeness
16:45 deafferret lol
16:45 rbuels_ like having my own table saw
16:45 rbuels_ (i don't actually have a table saw)
16:45 deafferret I compliment myself in #uno every once it a while, just so I know I'm doing a good job  :)
16:47 rbuels_ i wish garry's mod would just go away
16:47 deafferret oh? namespace conflict?
16:47 rbuels_ so inconvient
16:47 rbuels_ i should be able to type 'gmod wiki' in the firefox url box and have it go to the right place
16:48 deafferret :)   what do you have against physics sandboxen?
16:48 rbuels_ nothing as long as $boxname_abbreviation !~ /gmod/i
16:49 deafferret gmod.com : upgrade your game!
16:49 rbuels_ :-P
16:49 deafferret GMODDER beta!
16:50 deafferret I guess model organism database just aren't as sexy as physics or world of warcraft hacks
16:50 deafferret databases
16:50 deafferret is cxgn an acronym for something?
16:59 rbuels_ back a long time ago when we were trying to come up with a good toplevel namespace for our internal modules
16:59 rbuels_ the thinking was that we ran PGN, SGN, FGN, CGN
16:59 rbuels_ and the modules were common, so "XGN"
16:59 rbuels_ (common to those)
16:59 rbuels_ but XGN might not be unique enough
16:59 rbuels_ so add a C for cornell
16:59 rbuels_ which yields CXGN
17:00 deafferret so Cronell X Genome Network?
17:00 deafferret Cornell
17:00 rbuels_ um, sure
17:00 rbuels_ although we're not at cornell anymore
17:00 deafferret solar = S? what are P F C ?
17:00 deafferret oh
17:00 rbuels_ so i think CXGN just means CXGN
17:00 rbuels_ P is (was, really) the plant genome network
17:00 rbuels_ f was floral
17:00 rbuels_ c was coffee
17:01 deafferret a bunch of you / a bunch of code moved from cornell?
17:01 rbuels_ these were first-generation databases
17:01 rbuels_ around 2001/2
17:01 rbuels_ SGN used to be in Cornell dept of plant breeding
17:01 rbuels_ then moved to the boyce thompson institute
17:01 rbuels_ which is still on the cornell campus
17:01 rbuels_ but a different entity
17:02 rbuels_ it rents the building or land or something from cornell
17:02 deafferret sounds like PKI at UNO
17:02 deafferret private facilities that happen to be 100% univ students running around in them
17:15 elTigre joined #bioperl
18:58 rbuels_ so, i heard Bio::Graphics was being moved into the GMOD cvs
18:58 rbuels_ but it seems to still be in the bioperl-live cvs head
18:59 rbuels_ what gives?
19:00 rbuels_ deafferret: you know anything about that?
19:02 deafferret cvs? bioperl moved to SVN a year ago
19:03 rbuels_ ah, that would explain a bit
19:03 deafferret :)
19:03 rbuels_ so why the hell is the cvs still up
19:03 deafferret no clue. don't know how you found it
19:04 rbuels_ i have an svn vendor drop script that was cvs exporting it
19:04 rbuels_ haven't looked at it in a long time
19:04 rbuels_ cvs -z9 -d :pserver:cvs:cvs\@cvs.bioperl​.org:/home/repository/bioperl export -r HEAD bioperl-live bioperl-run;
19:05 rbuels_ still up and crackalackin
19:16 rbuels_ deafferret: shouldn't somebody take that cvs server down?
19:16 rbuels_ it's probably a security risk if nothing else
19:21 deafferret security risk? to who? I'd post that question to the mailing list if a quick search of it doesn't show the answer
19:24 deafferret i don't see that question in the last year in the mailing list
19:26 rbuels_ yeah i'll send it to the list
21:08 deafferret rbuels_: huh. I wonder why I thought you were in southern CA
21:54 rbuels_ deafferret: nope, i'm in portland, or, telecommuting to ithaca, ny
22:06 deafferret oh, you telecommute your sol gig? do you enjoy that?
22:06 deafferret full time?
22:39 rbuels_ yeah it's full time
22:40 rbuels_ the telecommuting part is not very enjoyable, actually
22:40 rbuels_ it was enjoyable for about the first year
22:40 rbuels_ kind of
22:42 rbuels_ all of which i just said is response to the deafferret
22:43 rbuels_ although why i bother replying i don't know, since (hah!) he's deaf, and cannot hear me
22:43 * rbuels_ will be here all week.  Tip your waitress.

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