bio-cd-hit-report 0.0.2 → 0.0.3

data/README.md

@@ -20,10 +20,19 @@ Note: this software is under active development!
    cluster_file = "cluster95.clstr"
     report = Bio::CdHitReport.new(cluster_file)
 
-      puts report.max_members #print the max number of sequences in a cluster for the entire dataset
-      puts report.min_members #print the minimum number of sequences in a cluster for the entire dataset
-      puts report.total_clusters #print total number of clusters in the report
+      #print the max number of sequences in a cluster for the entire dataset
+      puts report.max_members 
 
+      #print the minimum number of sequences in a cluster for the entire dataset
+      puts report.min_members 
+      
+      #print total number of clusters in the report
+      puts report.total_clusters  
+
+      #print the cluster members for cluster with id 1
+      puts report.get_cluster(1)
+
+      #information for each cluster
       report.each_cluster do |c|
         puts "#{c.name} - #{c.members}" #print cluster name/id with respective sequences in the cluster
         puts c.size #print the total number of entries in the cluster

data/Rakefile

@@ -17,8 +17,8 @@ Jeweler::Tasks.new do |gem|
   gem.name = "bio-cd-hit-report"
   gem.homepage = "http://github.com/georgeG/bioruby-cd-hit-report"
   gem.license = "MIT"
-  gem.summary = %Q{A bioruby wrapper for parsing and reading CD-HIT cluster reports}
-  gem.description = %Q{A bioruby wrapper for parsing and reading CD-HIT cluster reports}
+  gem.summary = %Q{Read and manipulate CD-HIT clusters}
+  gem.description = %Q{A Ruby library for reading CD-HIT cluster reports}
   gem.email = "georgkam@gmail.com"
   gem.authors = ["George Githinji"]
   # dependencies defined in Gemfile

data/VERSION

@@ -1 +1 @@
-0.0.2
+0.0.3

data/lib/bio-cd-hit-report/cd-hit-report.rb

@@ -1,6 +1,6 @@
 module Bio
 
-require_relative 'cluster.rb'
+  require_relative 'cluster.rb'
 
   class CdHitReport
 
@@ -16,6 +16,10 @@ require_relative 'cluster.rb'
       cluster_objs.size
     end
 
+    def get_cluster(name)
+      cluster_objs.select{|cluster| cluster.name == name.to_s}.pop.members
+    end
+
     def max_members
       cluster_objs.map{|c|c.size}.max
     end

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: bio-cd-hit-report
 version: !ruby/object:Gem::Version
-  version: 0.0.2
+  version: 0.0.3
   prerelease: 
 platform: ruby
 authors:
@@ -9,7 +9,7 @@ authors:
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2012-09-14 00:00:00.000000000 Z
+date: 2012-09-16 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: minitest
@@ -107,7 +107,7 @@ dependencies:
     - - ! '>='
       - !ruby/object:Gem::Version
         version: '0'
-description: A bioruby wrapper for parsing and reading CD-HIT cluster reports
+description: A Ruby library for reading CD-HIT cluster reports
 email: georgkam@gmail.com
 executables:
 - bio-cd-hit-report
@@ -144,7 +144,7 @@ required_ruby_version: !ruby/object:Gem::Requirement
       version: '0'
       segments:
       - 0
-      hash: 3043469588935666177
+      hash: 3441050478878586342
 required_rubygems_version: !ruby/object:Gem::Requirement
   none: false
   requirements:
@@ -156,5 +156,5 @@ rubyforge_project:
 rubygems_version: 1.8.24
 signing_key: 
 specification_version: 3
-summary: A bioruby wrapper for parsing and reading CD-HIT cluster reports
+summary: Read and manipulate CD-HIT clusters
 test_files: []