seqtrimnext 2.0.55 → 2.0.56

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@@ -1,7 +1,7 @@
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data/History.txt

@@ -1,3 +1,7 @@
+=== 2.0.56 2013-07-25
+
+added split_fasta.rb script
+
 === 2.0.55 2013-07-23
 
 Sanger adapters plugin. Option to disable reject by indeterminations in the middle of a sequence.

data/bin/split_fasta.rb

@@ -9,7 +9,7 @@ if ARGV.count < 3
 end
 
 
-  
+
 fastq = ARGV.shift
 output_name = ARGV.shift
 split_by = ARGV.shift.to_i
@@ -17,29 +17,26 @@ split_by = ARGV.shift.to_i
 
 file_index=1
 out=File.new("#{output_name}#{file_index}.fasta",'w')
-
 fqr=FastaQualFile.new(fastq)
 
 count = 0
 
 fqr.each do |seq_name,seq_fasta,comments|
-  
-
-  out.puts(">#{seq_name+i.to_s} #{comments}")
-  out.puts(seq_fasta)
 
-  count +=1
+  if (count >= split_by)
+    count=0
 
-  if (count % split_by) == 0 
-      
     file_index +=1
     out.close
     out=File.new("#{output_name}#{file_index}.fasta",'w')
-
   end
-end
 
- 
-out.close
-fqr.close
+  out.puts(">#{seq_name} #{comments}")
+  out.puts(seq_fasta)
+
+  count +=1
+
+end
 
+out.close if out
+fqr.close

data/lib/seqtrimnext.rb

@@ -30,7 +30,7 @@ module Seqtrimnext
   # SEQTRIM_VERSION_STAGE = 'b'
   # SEQTRIM_VERSION = "2.0.0#{SEQTRIM_VERSION_STAGE}#{SEQTRIM_VERSION_REVISION}"
   
-   VERSION = '2.0.55'
+   VERSION = '2.0.56'
   
   SEQTRIM_VERSION = VERSION
   

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification 
 name: seqtrimnext
 version: !ruby/object:Gem::Version 
-  version: 2.0.55
+  version: 2.0.56
 platform: ruby
 authors: 
 - Dario Guerrero & Almudena Bocinos
@@ -9,7 +9,7 @@ autorequire:
 bindir: bin
 cert_chain: []
 
-date: 2013-07-24 00:00:00 Z
+date: 2013-07-25 00:00:00 Z
 dependencies: 
 - !ruby/object:Gem::Dependency 
   name: narray