fastq-factory 0.1.5 → 0.1.6

data/VERSION

@@ -1 +1 @@
-0.1.5
+0.1.6

data/bin/fastq-factory

@@ -8,7 +8,7 @@ require 'trollop'
 options = Trollop::options do
   opt :trim, "Trim fastq files"
   opt :metrics, "Produce quality metrics"
-  opt :directory, "The full path to thedirectory where the fastq and sample map files are stored", :type => :string, :required => true
+  opt :directory, "The full path to the directory where the fastq and sample map files are stored", :type => :string, :required => true
   opt :sample_map_file, "A file that where each line is tab-delimited filename_prefix and sample name e.g H113880160-S2-E1_S3_L001\\tH113880160", :type => :string, :required => true
   opt :forward_reads_suffix, "The suffix for the forward read files such that the prefix listed in the sample map file and the suffic combined will make up the complete fastq filename", :type => :string, :required => true
   opt :reverse_reads_suffix, "The suffix for the forward read files such that the prefix listed in the sample map file and the suffic combined will make up the complete fastq filename", :type => :string, :required => true
@@ -17,7 +17,7 @@ options = Trollop::options do
   opt :quake_dir, "The directory where the quake executable can be found", :short => "-Q", :type => :string
   opt :trim_point_fraction, "The fraction of the read length below which a read will be discarded if it is shorter than teh value after trimming", :short => "-T", :type => :float, :default => 0.6
   opt :trim_quality_cutoff, "The quality used as a cutoff with which to trim a read from the 3' end", :short => "-E", :type => :integer, :default => 20
-  opt :metrics_quality_cutoff, "The quality value which will be used to determine at which position the read falls below this valeu in a 5 position window", :short => "-W", :type => :integer, :default => 30
+  opt :metrics_quality_cutoff, "The quality value which will be used to determine at which position the read falls below this value in a 5 position window", :short => "-W", :type => :integer, :default => 30
 end
 
 forward_reads_suffix, forward_reads_file_extension = options[:forward_reads_suffix].match(/(.+)\.(.+?)$/).captures

data/fastq-factory.gemspec

@@ -5,11 +5,11 @@
 
 Gem::Specification.new do |s|
   s.name = "fastq-factory"
-  s.version = "0.1.5"
+  s.version = "0.1.6"
 
   s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
   s.authors = ["Anthony Underwood"]
-  s.date = "2012-08-29"
+  s.date = "2012-08-31"
   s.description = "This tool can process fastq files, using fastq_quality_trimmer and quake to correct fastq files and then provide a quality asssessment of the data"
   s.email = "anthony.underwood@hpa.org.uk"
   s.executables = ["fastq-factory"]

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: fastq-factory
 version: !ruby/object:Gem::Version
-  version: 0.1.5
+  version: 0.1.6
   prerelease: 
 platform: ruby
 authors:
@@ -9,7 +9,7 @@ authors:
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2012-08-29 00:00:00.000000000 Z
+date: 2012-08-31 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: trollop
@@ -165,7 +165,7 @@ required_ruby_version: !ruby/object:Gem::Requirement
       version: '0'
       segments:
       - 0
-      hash: 2435527591364603339
+      hash: -2993436781626522659
 required_rubygems_version: !ruby/object:Gem::Requirement
   none: false
   requirements: