protk 1.4.4.beta1 → 1.4.4.beta2
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/bin/mzid_to_protxml.rb +2 -1
- data/lib/protk/mzidentml_doc.rb +2 -1
- data/lib/protk/protein_group.rb +2 -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: f278e7fe8e3a0955907a13952ced4fa0d772c204
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4
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data.tar.gz: 513fb214683486b9d3596a9b9f0956107d611170
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5
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SHA512:
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6
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metadata.gz:
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data.tar.gz:
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6
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metadata.gz: e59fcb0724cbf42b8f63e65ca6d88fd91c7d45d3981964358c82e040f9235e2ce6768251d088966044827cadf5c9ce46f189345d3c27293d0b10b44daf018c10
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7
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data.tar.gz: 36329dca4cf416fc2b9bd6f0d395895ee2fd32fdba2f6ebd75c5d26ed21b497dc890cfc6bcf36b1f08bc7f3954bae76adea64450a431d6ac365a2930191997cc
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data/bin/mzid_to_protxml.rb
CHANGED
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@@ -71,7 +71,8 @@ protein_groups.each do |group_node|
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if group_prob >= tool.minprob.to_f
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$stdout.write "\n" if tool.debug
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$protk.log "Writing group with probability #{group_prob}" , :info
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-
group = ProteinGroup.from_mzid(group_node,mzid_doc,tool.minprob.to_f)
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group = ProteinGroup.from_mzid(group_node,mzid_doc,tool.minprob.to_f)
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# require 'byebug';byebug
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prot_xml_writer.append_protein_group(group.as_protxml)
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n_written+=1
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end
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data/lib/protk/mzidentml_doc.rb
CHANGED
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@@ -127,8 +127,9 @@ class MzIdentMLDoc < Object
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# Memoized because it gets called for every protein in a group
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def get_proteins_for_group(group_node)
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# puts group_node.attributes['group_number']
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@proteins_for_group_cache ||= Hash.new do |h,key|
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-
h[key] = self.find(
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h[key] = self.find(key,"ProteinDetectionHypothesis")
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end
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@proteins_for_group_cache[group_node]
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end
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data/lib/protk/protein_group.rb
CHANGED
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@@ -68,7 +68,8 @@ class ProteinGroup
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def as_protxml()
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node = XML::Node.new('protein_group')
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node["group_number"] = self.group_number.to_s
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-
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# require 'byebug';byebug
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node["group_probability"] = (self.group_probability * 0.01).to_s
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self.proteins.each { |prot| node << prot.as_protxml }
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node
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end
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