Camelia, the Perl 6 bug

IRC log for #bioperl, 2009-04-22

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All times shown according to UTC.

Time Nick Message
00:05 deafferret perl_splut: I'm back. looking.
00:06 perl_splut sigh... time to bike home, but I'll see your answer in the channel tomorrow, heheh
00:09 deafferret looks like you're spending 95% of your time in BioPerl. So if what you're doing is trivial and you need it faster then perhaps stand-alone perl would be more optimized, or even a C re-write of whatever you're doing 30M times
00:10 deafferret but I can't really know w/o seeing what you're doing. -shrug-
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13:09 faceface hi
13:20 faceface how can I creat fastq from fasta and qual file?
13:23 faceface I'm really confused about how to get Bio::Seq::fastq to work
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14:01 rtdejonge Hi, does any one have time to help me on a problem with get_seq_by_version in the Bio::DB::GenBank module?
14:03 rtdejonge It seemed to be working fine 2 weeks ago but now it cannot retrieve the necessary data from ncbi.
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16:10 perl_splut wow... cut almost 100s off the run time with a small change to the code
16:49 deafferret woot!  :)
17:03 perl_splut still not sure why it is making so many calls to Bio::SeqFeature::Generic, heheh
17:05 perl_splut 3.6 million calls are made to Bio::SeqFeature::Generic->new
17:11 deafferret you could put a debugger breakpoint in there ($DB::single = 1) and then perl -d your script and then T to see the stack trace
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