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Bio::Tools::CodonTable: add codon table 15 (#389)
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The codon table 15 was removed in 7f52ed5 to address #256 (updating
CodonTable for current version which added codon tables 26-31 and
removed codon table 15).  However, it seems that codon table was added
back to NCBI.  This commit adds codon table #15 again.
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igortru authored and carandraug committed Apr 22, 2024
1 parent e8a24d2 commit 91a2365
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Showing 2 changed files with 6 additions and 5 deletions.
5 changes: 3 additions & 2 deletions Changes
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Expand Up @@ -6,13 +6,14 @@ Summary of important user-visible changes for BioPerl
using SUPER::new() [#307].
* Fix test for BSML SAX by using lax parser XML::SAX::PurePerl since
the external DTD URL now 404s [#376].
* Added codon table 15 Bio::Tools::CodonTable [#389].

1.7.8 2021-02-02 23:02:18-06:00 America/Chicago
* Bio::SeqIO::interpro has been moved to a separate repository to
deal with issues with XML::DOM::XPath bitrot [#347]
* Pull requests:
* Adjust Swiss-Prot FT A..B lines [#348] from @smoe
* Update %FTQUAL_NO_QUOTE: List of qualifiers without quote [#339] from
* Update %FTQUAL_NO_QUOTE: List of qualifiers without quote [#339] from
@hdevillers

1.7.7 2019-12-07 13:41:36-06:00 America/Chicago
Expand All @@ -27,7 +28,7 @@ Summary of important user-visible changes for BioPerl
and a 'private' _sleep() function that mirror those from
Bio::DB::WebDBSeqI, primarily for compliance with potential website
restrictions for the number and frequency of queries (e.g. NCBI eUtils).

* Fix bug #329, related to Bio::Tree::Statistics::transfer_bootstrap_expectation
in last release.

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6 changes: 3 additions & 3 deletions lib/Bio/Tools/CodonTable.pm
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Expand Up @@ -215,7 +215,7 @@ BEGIN {
'Alternative Yeast Nuclear',# 12
'Ascidian Mitochondrial',# 13
'Alternative Flatworm Mitochondrial',# 14
'',
'Blepharisma Nuclear',#15
'Chlorophycean Mitochondrial',# 16
'', '', '', '',
'Trematode Mitochondrial',# 21
Expand Down Expand Up @@ -247,7 +247,7 @@ BEGIN {
FFLLSSSSYY**CC*WLLLSPPPPHHQQRRRRIIIMTTTTNNKKSSRRVVVVAAAADDEEGGGG
FFLLSSSSYY**CCWWLLLLPPPPHHQQRRRRIIMMTTTTNNKKSSGGVVVVAAAADDEEGGGG
FFLLSSSSYYY*CCWWLLLLPPPPHHQQRRRRIIIMTTTTNNNKSSSSVVVVAAAADDEEGGGG
''
FFLLSSSSYY*QCC*WLLLLPPPPHHQQRRRRIIIMTTTTNNKKSSRRVVVVAAAADDEEGGGG
FFLLSSSSYY*LCC*WLLLLPPPPHHQQRRRRIIIMTTTTNNKKSSRRVVVVAAAADDEEGGGG
'' '' '' ''
FFLLSSSSYY**CCWWLLLLPPPPHHQQRRRRIIMMTTTTNNNKSSSSVVVVAAAADDEEGGGG
Expand Down Expand Up @@ -284,7 +284,7 @@ BEGIN {
----------**--*----M---------------M----------------------------
---M------**----------------------MM---------------M------------
-----------*-----------------------M----------------------------
''
---M------**--*----M------------MMMM---------------M------------
----------*---*--------------------M----------------------------
'' '' '' ''
----------**-----------------------M---------------M------------
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