Camelia, the Perl 6 bug

IRC log for #bioperl, 2011-03-03

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03:38 CIA-44 bioperl6: takadonet master * r0549eec / t/Location/Simple.t : commented a section of test since I believe they are not correct. Need external input - http://bit.ly/eNJdwF
03:39 CIA-44 bioperl6: takadonet master * r358307f / lib/Bio/Location/Simple.pm : Added is_fuzzy hash and finished is_fuzzy method. Got most of code in for to_string method but cannot do much since need SubTypes for lots of the attributes - http://bit.ly/gLerI4
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14:49 cassj hey. anyone using Primer3Redux? Am getting an error calling get_processed_seq.
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14:57 Andrei_ hello
14:57 Andrei_ can someone help me with some bioperl objects?
15:00 Andrei_ I am wondering if it is possible to get the genebank information from a file and attach it to the corresponding sequence
15:01 Andrei_ in order to be able to get the information from a certain gene, or to find a gene using a part of its sequence as a query
16:02 dbolser anyone use BigWig?
16:03 dbolser seems I need as many files as I have 'chromosomes'
16:03 dbolser and by chromosomes, I mean 'reference sequences'...
16:03 dbolser which sucks
16:06 dbolser my bad
16:16 Andrei_ Is RichSeq able to get annotation information from a genbank file?
16:33 CIA-44 bioperl-live: Christopher Bottoms master * re614d21 / Bio/AlignIO/stockholm.pm : Replaced 'phylip' with 'stockholm' in documentation for constructor. - http://bit.ly/eskA1R
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16:53 Andrei_ OK I just found out that SeqIO can hold the info in a genbank file
16:53 Andrei_ I'm looking into that and see what I can do with it
16:56 Andrei_ It looks like SeqIO makes a ReachSeq object when given a genbank file
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18:22 Topic for #bioperl is now Be patient!  Sometimes it takes a few minutes for people to notice your question! | http://bioperl.org/wiki/IRC#Getting_help | http://www.bioperl.org/wiki/Using_Git | nopaste to gist.github.com
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23:03 CIA-44 bioperl6: takadonet master * rbec78a8 / (3 files in 3 dirs): moved over Location/Simple.pm over to Role directory since it's a Role - http://bit.ly/hvdNb6
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