Camelia, the Perl 6 bug

IRC log for #bioperl, 2010-01-05

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All times shown according to UTC.

Time Nick Message
01:16 driley joined #bioperl
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01:56 driveby_bot /home/svn-repositories/bioperl: r16590 (maj) : provide for raw xml retrieval; bug squishes
01:56 * deafferret clutches all nearby chests, collapses
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01:56 driveby_bot /home/svn-repositories/bioperl: r16591 (maj) : Result object to parse/wrap soap repsonse
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02:31 driveby_bot /home/svn-repositories/bioperl: r16592 (maj) : some conveniences and back-compat
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02:33 driveby_bot /home/svn-repositories/bioperl: r16593 (maj) : propset
02:37 deafferret heh... interest as re-usability approaches zero?
02:38 ptl_ ?
02:38 deafferret just whining about $project. ignore me  :)
02:38 ptl what is the scope of that comment? I didn't get it...
02:38 ptl oh,,,
02:38 ptl lol
02:39 ptl $project or propset ?
02:39 deafferret $work[1]->{project_of_the_day}
02:40 deafferret it's pretty similar, but not similar enough to re-use to these other 3 @projects   :(
02:44 ptl :[
02:45 ptl i am taking a look at wxperl for a graphical interface to a perl application of mine
02:45 deafferret oh ya? that sits on top of wxWindows?
02:45 ptl yep
02:46 deafferret haven't done any of that...
02:46 ptl there's already a command-line utility, I'll do a graphical shell for it and use the Storable unit to serialize stuff and send data via pipe from the cli to the gui
02:47 ptl it seems neat
02:47 deafferret ooo... is this a BioPerl application?
02:48 ptl no, but if it proves to be easy, I'll definitely start using it for bioperl
02:48 deafferret woot!
02:49 deafferret next, my "BroodComb" application I just launched 3 minutes ago  :)
02:50 ptl broodcomb? what does it do?
02:51 ptl combs broods?
02:51 deafferret um... in-silico PCR (regexs), subsequence locations, etc
02:51 deafferret kind of a ball of goo from several other projects that I'm trying to formalize so maybe I can stop re-writing it every 3 months
02:52 deafferret little SQLite, DBIx::Class set of scripts that do Stuf
02:52 deafferret f
02:52 deafferret not useful yet, but maybe someday
02:53 ptl I think I have some code like that too
02:53 ptl too specific for my case, can't be generalized to others...
02:53 deafferret search.pl miRNA_seeds.fa human.mrna.fa   ... stores in "hits", "hits_stats" tables, etc
02:53 deafferret ya, its all the while ($large_seq =~ /$small_seq/g) {
02:54 ptl got it :)
02:54 deafferret forward and reverse, keeping track of strand, blah blah blah
02:54 deafferret or, in the case of Primers, it calculates Transscipts and stores that in teh database too
02:55 deafferret and graph.pl kicks out little Bio::Graphics widgets ... and whatever else I glob into it
02:55 deafferret from all these programs lying around
02:55 deafferret that I'm tired of rewriting  :)
02:55 deafferret meh.   -shrug-
02:56 ptl one of the uses for my learning wxperl is to maybe (most probably) work in some graphical sequence editor, like bioedit
02:56 deafferret a sexy annotation gizmo would be neat  :)
02:57 ptl it has all the controls for that, I am still uncertain tho about the possibility of a MDI interface like the one in bioedit
03:00 deafferret also, it combs broods.  ;)
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15:04 driveby_bot /home/svn-repositories/bioperl: r16594 (maj) : facilities for usehistory/webenv/querykey; tweaks
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15:43 driveby_bot /home/svn-repositories/bioperl: r16595 (maj) : Result POD; tweaks
16:37 deafferret ..o@.o.@@o..
16:38 rbuels truly that is the greatest of memes.
16:38 * deafferret agrees
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18:59 driveby_bot /home/svn-repositories/bioperl: r16596 (maj) : fix for multiple ids
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19:00 driveby_bot /home/svn-repositories/bioperl: r16597 (maj) : add some goodies
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19:01 driveby_bot /home/svn-repositories/bioperl: r16598 (maj) : also handle included schemata
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19:01 driveby_bot /home/svn-repositories/bioperl: r16599 (maj) : working on autofetch
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19:11 driveby_bot /home/svn-repositories/bioperl: r16600 (cjfields) : Allow other SearchIO text-based parsers, even though they're borked ATM
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19:11 driveby_bot /home/svn-repositories/bioperl: r16601 (cjfields) : speling eror
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20:14 driveby_bot /home/svn-repositories/bioperl: r16602 (cjfields) : At least parse the query bits if no hit is returned.  This doesn't fix a bug where hits are returned but they are erroneous (mismunged data)
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20:32 perl_splut someone needs to stop the drivebys before an innocent child gets hurt... :)
20:33 * deafferret has grown used to it  :)
20:33 rbuels aw man, it's just like that episode of the wire
20:33 deafferret better than silence I suppose  :)
20:33 * deafferret heads to Hamsterdam
20:33 rbuels lol
20:56 perl_splut I don't think I want to know what is in the redlight district of hamsterdam...
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22:09 driveby_bot /home/svn-repositories/bioperl: r16603 (cjfields) : fix to return w/o hits if no hits are found
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