bacterial-annotator 0.1.2 → 0.1.3
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- checksums.yaml +4 -4
- data/lib/bacterial-annotator/genbank-manip.rb +1 -0
- data/lib/bacterial-annotator.rb +3 -1
- metadata +1 -1
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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1
1
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---
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2
2
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SHA1:
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3
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-
metadata.gz:
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4
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-
data.tar.gz:
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3
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+
metadata.gz: 746fa68fef3d2d9c1c6df6fef95c354a818e55e1
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4
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+
data.tar.gz: e0bbb9f28e87ef0daaf745e1eba9c1bf215d1f63
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5
5
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SHA512:
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6
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-
metadata.gz:
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7
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-
data.tar.gz:
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6
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+
metadata.gz: 0cd5f9a866b7f5bff37cd176ba941a11bf59fb51cba37f626da458b38ae9cb1acc03693848f0b1d7bbf276580f1b252c9ea3040cd4098ff61e3a6c4086a0ca1c
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7
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+
data.tar.gz: 35fe32dcca6c1a5f5316718fb48b5fa38fbb69069a06230595b1c024e654ba3319122183260dcc6beb6c93083c9c75a1784e845a0b2c6f94e18aab61c93ff918
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@@ -146,6 +146,7 @@ class GenbankManip
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146
146
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ftArray.push(qProd)
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147
147
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end
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148
148
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149
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+
# check if there is a reference genome.. reference_locus shouldn't be nil in that case
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149
150
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if locus != nil
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150
151
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qNote = Bio::Feature::Qualifier.new('note', "correspond to #{locus} locus (#{pId}% identity) from #{reference_locus.entry_id}")
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151
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ftArray.push(qNote)
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data/lib/bacterial-annotator.rb
CHANGED
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@@ -228,7 +228,9 @@ class BacterialAnnotator
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228
228
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@contig_annotations.each do |contig, contig_prot_annotations|
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229
229
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gbk_path = @fasta.prodigal_files[:gbk_path]
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230
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gbk_to_annotate = GenbankManip.new("#{gbk_path}/#{contig}.gbk", "#{gbk_path}")
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231
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-
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231
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+
reference_locus = nil
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232
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+
reference_locus = @refgenome.gbk.locus if @with_refence_genome
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233
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+
gbk_to_annotate.add_annotation contig_prot_annotations, gbk_path, 0, reference_locus
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232
234
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end
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233
235
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234
236
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end # end of method
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