bio-velvet 0.4.0 → 0.4.2

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Files changed (4) hide show
  1. checksums.yaml +4 -4
  2. data/VERSION +1 -1
  3. data/lib/bio-velvet/graph.rb +9 -9
  4. metadata +2 -2
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data/VERSION CHANGED
@@ -1 +1 @@
1
- 0.4.0
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+ 0.4.2
@@ -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
@@ -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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- "Node #{@node_id}: #{@ends_of_kmers_of_node} / #{@ends_of_kmers_of_twin_node}"
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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
metadata CHANGED
@@ -1,14 +1,14 @@
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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: 0.4.0
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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: 2014-06-14 00:00:00.000000000 Z
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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