Camelia, the Perl 6 bug

IRC log for #bioperl, 2011-03-10

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All times shown according to UTC.

Time Nick Message
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03:15 CIA-57 bioperl6: takadonet master * rd10e448 / lib/Bio/Tools/CodonTable.pm : Moved %codons and %trcol creation into INIT and also made them package scoped variables - http://bit.ly/gxyrFz
03:20 CIA-57 bioperl-live: Lincoln Stein master * r532dcfc / (8 files in 4 dirs):
03:20 CIA-57 bioperl-live: Worked around changes in memory adapter without abolishing the features
03:20 CIA-57 bioperl-live: that Florent added to the memory adapter. Please revisit the decision to
03:20 CIA-57 bioperl-live: allow arbitrary primary_ids in features that can be stored to the database. - http://bit.ly/hqtXWO
03:20 CIA-57 bioperl-live: Lincoln Stein master * r455ed6f / (3 files in 3 dirs):
03:20 CIA-57 bioperl-live: improved performance of SQLite and mysql adaptors when loading many DNA
03:20 CIA-57 bioperl-live: sequences; fixed berkeleydb3 adaptor to return correct result from
03:20 CIA-57 bioperl-live: get_features_by_type() when called with a primary_tag and no source -
03:20 CIA-57 bioperl-live: http://bit.ly/eI7to4
03:20 CIA-57 bioperl-live: Lincoln Stein master * r1c2cf24 / (6 files in 3 dirs): fixed up berkeleydb adaptor to pass new set of regression tests - http://bit.ly/gokc4F
03:23 CIA-57 bioperl6: takadonet master * r7666232 / lib/Bio/Tools/CodonTable.pm : Moved %IUB attribute into INIT block and now is a package variable instead of an attribute - http://bit.ly/ihHI3Q
03:31 CIA-57 bioperl6: takadonet master * r1c91dd0 / t/Tools/CodonTable.t : passing one more test - http://bit.ly/ekqbaI
03:42 CIA-57 bioperl6: takadonet master * r83f2a28 / (lib/Bio/Tools/CodonTable.pm t/Tools/CodonTable.t): Removed new since not needed anymore. Cleaned up both code and test files. - http://bit.ly/g0HmZi
04:15 CIA-57 bioperl6: takadonet master * r0beb905 / (t/SeqIO/fasta.t t/data/multi_1.fa): Added more tests for FastaIO - http://bit.ly/hkXwfF
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16:23 pyrimidine rbuels: any updates on OBF GSoC projects?
16:35 rbuels pyrimidine: yeah, pjotr prins, eric talevich, and now some bioruby guy are doing some things
16:35 rbuels pyrimidine: see #obf-soc
16:35 rbuels pyrimidine: and you should be in #obf-soc.
16:35 pyrimidine rbuels: just noticed I wasn't (too many windows open); going there
16:36 rbuels pyrimidine: i'm going to send the app today i think
16:36 rbuels right now, actually
16:36 pyrimidine ok
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16:37 pyrimidine we have some general project ideas from the various OBF groups; some of them have carried over from last year
16:38 * rbuels nods
16:38 rbuels pyrimidine: say this in #obf-soc  :-)
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21:55 CIA-57 bioperl6: takadonet master * r23c92b0 / (lib/Bio/Tools/IUPAC.pm t/Tools/IUPAC.t): Cleaned up IUPAC.pm and implemented new,count and new methods as well. - http://bit.ly/fhBzae
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22:40 CIA-57 bioperl6: takadonet master * r848fed9 / (lib/Bio/Role/Location/Split.pm t/Location.t): initial port of new test file for Location.t and mostly empty role for Split.pm - http://bit.ly/f6N1pK
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23:13 CIA-57 bioperl6: takadonet master * r180c153 / (4 files in 2 dirs): Uncommented most tests in Location.t Initial import of Location Fuzzy. Added just another attribute so test will not die but still fail. Added empty methods for Simple and Split - http://bit.ly/gGfVCR
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