bio-velvet 0.4.0 → 0.4.2
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/VERSION +1 -1
- data/lib/bio-velvet/graph.rb +9 -9
- metadata +2 -2
checksums.yaml
CHANGED
@@ -1,7 +1,7 @@
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---
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SHA1:
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-
metadata.gz:
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-
data.tar.gz:
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metadata.gz: 2d61f788902dd64e947b0a072fe7ea4928d0090e
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4
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data.tar.gz: c74bf34034fed56504e7db21df832117747db1d6
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SHA512:
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-
metadata.gz:
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data.tar.gz:
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metadata.gz: 771d1e978e005c88e90e1c0f6740491f292d6296f7c32bb353ceab4c32b8d268beac7d81d74aa85d09d373ce1be09e53060ba7f41ff8d5203c0f2042cd13f855
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7
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+
data.tar.gz: 7630ace0116ba247f7982779874e5a1c0d94db026afcb07792094a64195e09bdbeaee14f4e27c292434c69a47e27481e95665dab41a043415e7fb415b7ebc797
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data/VERSION
CHANGED
@@ -1 +1 @@
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1
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-
0.4.
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1
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+
0.4.2
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data/lib/bio-velvet/graph.rb
CHANGED
@@ -197,7 +197,7 @@ module Bio
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passable_nodes.push nodes[arc.begin_node_id]
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end
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end
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-
return passable_nodes
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+
return passable_nodes.uniq
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end
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# Return the adjacent nodes in the graph that connect to the end of a node
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@@ -211,7 +211,7 @@ module Bio
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passable_nodes.push nodes[arc.end_node_id]
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end
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end
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-
return passable_nodes
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+
return passable_nodes.uniq
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end
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@@ -440,14 +440,14 @@ module Bio
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revcom(sequence)
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end
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-
# Number of nucleotides in this node if this contig length is being added to
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-
# another node's length (nodes overlap)
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-
def length_alone
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@ends_of_kmers_of_node.length
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end
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-
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def to_s
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-
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fwd = @ends_of_kmers_of_node
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rev = @ends_of_kmers_of_twin_node
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if @ends_of_kmers_of_node.length > 10
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fwd = @ends_of_kmers_of_node[0...10]+'..'
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rev = @ends_of_kmers_of_twin_node[0...10]+'..'
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end
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"Node #{@node_id}: #{fwd} / #{rev}"
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end
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def inspect
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metadata
CHANGED
@@ -1,14 +1,14 @@
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1
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--- !ruby/object:Gem::Specification
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name: bio-velvet
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version: !ruby/object:Gem::Version
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-
version: 0.4.
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4
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version: 0.4.2
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platform: ruby
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authors:
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- Ben J Woodcroft
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autorequire:
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bindir: bin
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cert_chain: []
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-
date: 2014-
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+
date: 2014-07-15 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: bio-logger
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