Log of /FigKernelPackages/gjoseqlib.pm
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Revision
1.13 -
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Tue Feb 12 20:08:01 2008 UTC (11 years, 9 months ago) by
golsen
Branch:
MAIN
CVS Tags:
mgrast_rel_2008_0625,
mgrast_rel_2008_0806,
mgrast_rel_2008_0917,
mgrast_rel_2008_0919,
mgrast_rel_2008_0923,
mgrast_rel_2008_0924,
mgrast_rel_2008_1110,
mgrast_rel_2008_1110_v2,
rast_2008_0924,
rast_rel_2008_04_23,
rast_rel_2008_06_16,
rast_rel_2008_06_18,
rast_rel_2008_07_21,
rast_rel_2008_08_07,
rast_rel_2008_09_29,
rast_rel_2008_09_30,
rast_rel_2008_10_09,
rast_rel_2008_10_29,
rast_rel_2008_11_24,
rast_rel_2008_12_18,
rast_rel_2009_02_05,
rast_release_2008_09_29
Changes since
1.12: +1 -1 lines
Diff to
previous 1.12
Fixed major error in read_fasta() when there is not definition.
Revision
1.12 -
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Mon Feb 11 20:37:27 2008 UTC (11 years, 9 months ago) by
golsen
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Changes since
1.11: +167 -49 lines
Diff to
previous 1.11
Fix a bug in translation with user-supplied genetic code (thank you Gordon).
Fix a bug in read_next_fasta_seq() that failed when the fasta header line
had an id, a space, and then no description.
Improve flexibility of read_next_fasta_seq() so that it will take a file
name, a file handle, or default to STDIN.
Double the speed of read_fasta by reading the whole file, then splitting
it into the structures.
Revision
1.11 -
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Thu Jan 3 21:36:41 2008 UTC (11 years, 11 months ago) by
golsen
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Changes since
1.10: +169 -0 lines
Diff to
previous 1.10
Add routines for calculating the fractional sequence difference in a
nucleotide alignment. They sould be much faster than a loop over
pairs of positions, and allow separate weighting of gap openning and
gap extension, and of terminal versus interal gaps.
Revision
1.10 -
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Fri Nov 23 00:33:31 2007 UTC (12 years ago) by
golsen
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Changes since
1.9: +208 -215 lines
Diff to
previous 1.9
Add support for pyrrolysyl proteins. Also, major revision and clean-up
of the translation utilities in gjoseqlib.pm.
Revision
1.2 -
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Wed Nov 30 18:33:41 2005 UTC (14 years ago) by
golsen
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Changes since
1.1: +476 -90 lines
Diff to
previous 1.1
This package is not currently used by any scripts, but I anticipate doing
so. I had not been keeping the FIG version up-to-date relative to my
own.
This form allows you to request diffs between any two revisions of this file.
For each of the two "sides" of the diff,
select a symbolic revision name using the selection box, or choose
'Use Text Field' and enter a numeric revision.
