bio-rocker 1.3.0 → 1.3.1

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: 0ecb36031d65a56ae6a7e4144d7102f171d30bebcadfdf5a132622b3a743b901
-  data.tar.gz: 5f8251402d40ddbba6097014e1f93a1bce0245e4cc2b3fac4a3d849c5a009c18
+  metadata.gz: e1d57ddce91458189a74b7d7f104b2b663396f0df6a2ab7077d4bea45028d982
+  data.tar.gz: 2625bbba04cec1435ae82518cdee6848d6c1fa3775e8030e6bcd6b754db54409
 SHA512:
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-  data.tar.gz: 8c23e1ad05edc88aa364b4f54ca594897cf971a98b3f98332a165d0a268b65985bba84eb020e509b3a5ae414099bcd79878d025ee2cb164f6c25d8e225ace685
+  metadata.gz: 5e7f492f6a9c48aebb3a263345567942e0021dc5027d5dafaeac415a10b66fe0670e709ad007e6d607fad9b32c0fb88d8f5b0e9df19b09ebbd92fdc2bf88e6bf
+  data.tar.gz: fb260962739d7b8c0e65629786154ff295c1a46b243a7502697cb497bf56f6390147731823a0c390c8e7855e4402c5ce4fdfa3a66ef86d044ed7ba08ed3b3ed0

data/bin/ROCker

@@ -236,9 +236,8 @@ opts = OptionParser.new do |opt|
       opt.on("-x", "--query-blast PATH",
 	 "Unfiltered tabular BLAST. By default, this file is not " +
 	 "kept."){ |v| o[:qblast]=v }
-      opt.on('-L', '--length-correction PATH',
-         'Path to the query reads, used to apply read-length correction to ' +
-         'bit scores.'){ |v| o[:lencorr] = v }
+      opt.on('-L', '--length-correction',
+         'Apply read-length correction to bit scores.'){ |v| o[:lencorr] = v }
       
       opt.separator ""
       opt.separator "+ EXTERNAL SOFTWARE OPTIONS"

data/lib/rocker.rb

@@ -9,7 +9,7 @@ require "rocker/rocdata"
 
 class ROCker
    #================================[ Class ]
-   @@VERSION = "1.3.0"
+   @@VERSION = "1.3.1"
    @@CITATION = [
       "Orellana, Rodriguez-R & Konstantinidis, 2016. DOI:10.1093/nar/gkw900.",
       "ROCker: accurate detection and quantification of target genes in",

data/lib/rocker/step/search.rb

@@ -15,6 +15,7 @@ class ROCker
    def search!
       raise "-k/--rocker is mandatory." if @o[:rocker].nil?
       raise "-i/--query is mandatory." if @o[:query].nil?
+      @o[:lencorr] = @o[:query] unless @o[:lencorr].nil?
 
       # Check requirements
       puts "Testing environment." unless @o[:q]

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: bio-rocker
 version: !ruby/object:Gem::Version
-  version: 1.3.0
+  version: 1.3.1
 platform: ruby
 authors:
 - Luis (Coto) Orellana