Kazuharu Arakawa
gaou****@sfc*****
2009年 12月 4日 (金) 17:18:55 JST
g.
v.1.8.10をリリースしました。
主な変更は以下の通りです。
===== v.1.8.10 2009.12.04 =====
* history is now persistent in G-language Shell
* codon_usage now accepts tRNAscan-SE output
* added support for contig: feature location in GenBank
* added G::Tools::Alignment::blat (experimental)
* added syntax-based file format interpretation to
G::IO::Handler::_interpret_format()
* added support for FastQ files (G::IO::FastQI). quality is stored
in $gb->{QUAL}
* added bbur (NC_001318) and plasmidF (NC_002483) to bundled genomes
* added G::Seq::PathSearch::signature_dist
* added G::Seq::Codon::scs
* added FASTA/FASTQ support in readFile(), returning sequence as
hash.
* added Selenocysteine and Xaa (Any amino acid) to
G::Seq::AminoAcid::one2three
* added G::Seq::AminoAcid::hydropathy
* added support for custom codon table to
G::Seq::Primitive::translate
* optimization of G::Seq::Codon to remove redundancy (also w/
G::Seq::AminoAcid)
* fixed handling of circular/linear LOCUS type
* fixed a bug in $gb->rRNA()
* fixed a bug in loading number only feature value in GenBank.
* fixed a bug in handling join feature without feature attribute
immediately before the sequence
* fixed a bug that adds blank line when encountering very long
feature entry in G::IO::GenBankO
* deprecated the following methods:
<code perl>
codon_counter
amino_counter
</code>
* deleted the following methods:
<code>
codon_amino_counter
_codon_amino_printer
_codon_usage_printer
</code>
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