fasta_util 0.3.1 → 0.4.0
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.
- data/Gemfile.lock +1 -1
- data/VERSION +1 -1
- data/bin/fasta_util +3 -1
- data/fasta_util.gemspec +2 -2
- metadata +3 -3
data/Gemfile.lock
CHANGED
data/VERSION
CHANGED
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@@ -1 +1 @@
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1
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-
0.
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1
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+
0.4.0
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data/bin/fasta_util
CHANGED
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@@ -5,7 +5,7 @@ require 'set'
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class FastaUtility < Thor
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include Thor::Actions
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-
Struct.new("Stats", :sum, :l50, :n50, :
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Struct.new("Stats", :sum, :l50, :n50, :max, :mean, :median, :min, :count)
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no_tasks do
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def stats(lengths)
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@@ -16,8 +16,10 @@ class FastaUtility < Thor
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stats[:sum] = lengths.inject(:+)
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stats[:l50] = lengths.find{|length| (temp_sum += length) > stats[:sum]/2.0}
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stats[:n50] = lengths.count{|length| length >= stats[:l50]}
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stats[:max] = lengths.max
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stats[:mean] = stats[:sum].to_f/lengths.length
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stats[:median] = (lengths.length % 2 == 0) ? (lengths[lengths.length/2-1] + lengths[lengths.length/2])/2.0 : lengths[lengths.length/2]
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stats[:min] = lengths.min
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stats[:count] = lengths.count
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return stats
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end
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data/fasta_util.gemspec
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@@ -5,11 +5,11 @@
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Gem::Specification.new do |s|
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s.name = %q{fasta_util}
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s.version = "0.
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s.version = "0.4.0"
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s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
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s.authors = ["robsyme"]
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s.date = %q{2011-
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s.date = %q{2011-07-07}
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s.default_executable = %q{fasta_util}
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s.description = %q{Easy fasta filtering, wrapping, calculating common statistics, sorting etc. Based on the fasta_tool script that I think was written by Jason Stajich.}
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s.email = %q{rob.syme@gmail.com}
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metadata
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@@ -2,7 +2,7 @@
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name: fasta_util
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version: !ruby/object:Gem::Version
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prerelease:
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version: 0.
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version: 0.4.0
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platform: ruby
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authors:
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- robsyme
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@@ -10,7 +10,7 @@ autorequire:
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bindir: bin
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cert_chain: []
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date: 2011-
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date: 2011-07-07 00:00:00 +08:00
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default_executable: fasta_util
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dependencies:
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- !ruby/object:Gem::Dependency
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@@ -125,7 +125,7 @@ required_ruby_version: !ruby/object:Gem::Requirement
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requirements:
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- - ">="
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- !ruby/object:Gem::Version
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hash:
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hash: 4438515197359890059
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segments:
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- 0
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version: "0"
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