Camelia, the Perl 6 bug

IRC log for #bioperl, 2010-07-25

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All times shown according to UTC.

Time Nick Message
05:56 bag_ joined #bioperl
10:03 bag_ joined #bioperl
11:53 dbolser beep beeep beep beep beep thud
11:55 dbolser can I call 'has_tag' on a Contig?
14:21 dbolser why is so.org down?
14:21 * dbolser banks his fist heavily on the #bioperl conference table
14:25 * genehack` settles back in to deafferret's #3120...
14:59 dbolser linky?
15:17 dbolser OMG... its full of buts
16:06 * genehack reaches closure and sits down to write up the bad news for deafferret
16:25 burmas joined #bioperl
16:27 dbolser what inherits SeqFeatureI?
16:34 genehack a whole bunch of stuff, but not Bio::SeqFeature::Lite
16:36 * dbolser tries to think of a funny way to say... what stuff?
16:36 dbolser grep -r summut bioperl-live
16:53 * genehack hates it when writing up the summary of why the bug can't be fixed shows you what you need to do to fix the bug
17:01 * dbolser resets genehack
17:16 dbolser I think a contig and a scaffold should also be featureI complient, based on the data in their associated 'main feature'
17:17 * dbolser detaches
17:29 genehack *headdesk* on the up side, it's fixable. on the downside, this is fugly.
17:30 genehack naptime for the offspring; back later...
18:17 genehack dbolser: it looks like Bio::Assembly::Contig does use a Bio::Assembly::SeqFeature::Collection to store stuff internally, but I don't think that means the config object is going to be SeqFeatureI-compatible.
18:17 genehack <--- fairly noob-ish, though.
18:36 genehack deafferret: I think 3120 is fixed -- see mailing list -- but would appreciate any confirmation you can offer.
18:42 genehack rbuels: i haven't heard anything back from MAJ on #3088, so if there's anything else you'd like me to poke at, feel free to let me know.
19:06 genehack otherwise i'll try to start working through old stuff in the bug list and see how much trouble i can stir up. 8^)
19:06 CIA-94 bioperl-live: John SJ Anderson master * r3a03b23 / scripts/Bio-DB-GFF/genbank2gff3.PLS : silence exception that happens with -y option - http://bit.ly/cPnxao
19:08 * genehack does the happy-patch-accepted-dance
19:29 bag_ joined #bioperl
20:31 deafferret ..o.OO___|\
20:39 genehack o_O

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