Camelia, the Perl 6 bug

IRC log for #bioperl, 2010-02-10

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All times shown according to UTC.

Time Nick Message
01:52 dnewkirk left #bioperl
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11:06 space_agent1 I want to blast locally or with blastcl3 against the complete refseq. Any Idea how to get "the" complete from refseq from ftp://ftp.ncbi.nlm.nih.gov/blast/db/. I don't get the increment?!
13:43 space_agent1 left #bioperl
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13:57 driveby_bot /home/svn-repositories/bioperl: r16832 (maj) : removed strange orphan arrays; eliminated some bad tests (to be replaced by good tests!)
13:57 driveby_bot Diff: http://tinyurl.com/y9purzb
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15:25 faceface rbuels: found a solution?
15:25 faceface rbuels: around?
15:26 faceface why does bioperl do things that don't makes sense?
15:28 faceface I had these fastq objects, and I'm calling write_seq on them
15:28 faceface the result is fastq output
15:28 faceface to stdout
15:28 faceface so I pass them a -file option, and guess what?
15:28 faceface the format is now fasta
15:28 faceface oh joy
15:45 faceface -format => 'fastq', but output = 'fasta' ... sob
15:46 faceface write_fastq != write_seq
15:46 * faceface flagelates
17:40 pyrimidine joined #bioperl
17:41 pyrimidine faceface: ping
17:42 pyrimidine faceface: that discrepency with write_seq should be fixed in the latest BioPerl release.  Pretty much all FASTQ has been refactored.
17:45 deafferret ..o....  .
18:48 rbuels faceface: flagellates.  two L's.
18:48 * rbuels flagellates faceface
18:51 deafferret rbuels: do you like nachos?
18:51 rbuels heh.
18:51 rbuels the phant does.
18:51 deafferret ENOTINCHANNEL
18:52 rbuels faceface likes nachoes
18:52 rbuels agh.
18:52 rbuels no E!
18:52 * rbuels autoflagellates
18:52 deafferret do try not to reward yourself for poor spelling
18:52 rbuels i'm sorry sir.
18:52 rbuels i have been ... very bad and naughty
18:53 * rbuels breathes heavily
18:53 * deafferret thinks rbuels and dhoss should bunk together on our MX trip
18:54 rbuels lol
18:57 deafferret how can I make this fatal?   Use of uninitialized value in numeric lt (<)
18:57 deafferret $SIG{WARN} = sub { die };   doesn't seem to do it...
18:59 deafferret use warnings FATAL => 'all';
18:59 deafferret deafferret++
19:06 deafferret there we go. silly operator precedence.   if ($val && $val =~ /\d/ && ((not defined $best_case[$offset]) || $val < $best_case[$offset])) { $best_case[$offset] = $val; }
19:07 rbuels that's quite a screenful
19:07 deafferret nothing a few more parens can't fix
19:08 rbuels you said that with a distinct lisp.
19:08 * deafferret continues Schemeing
19:31 perl_splut and the puns keep coming
20:42 deafferret gross
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