removed commented out stale code

[biopieces.git] / code_ruby / lib / maasha / filesys.rb

diff --git a/code_ruby/lib/maasha/filesys.rb b/code_ruby/lib/maasha/filesys.rb
index cee9e2213f9fef8766206b7a5b32f130620d8f18..6a990fa8b2cc67e85f576de1b8deaf088e6eb8f8 100644 (file)
--- a/code_ruby/lib/maasha/filesys.rb
+++ b/code_ruby/lib/maasha/filesys.rb
@@ -22,8 +22,6 @@
 
 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
 
-require 'zlib'
-# require 'bzip2'
 require 'open3'
 
 # Error class for all exceptions to do with Filesys.
@@ -50,9 +48,8 @@ class Filesys
     if mode == 'w'
       case options[:compress]
       when :gzip
-        ios = Zlib::GzipWriter.new File.open(file, mode, options)
+        ios, = Open3.pipeline_w("gzip -f", out: file)
       when :bzip, :bzip2
-        # ios = Bzip2::Writer.new File.open(file, mode, options)   # TODO being pissed with buggy bzip2 gem.
         ios, = Open3.pipeline_w("bzip2 -c", out: file)
       else 
         ios = File.open(file, mode, options)
@@ -63,9 +60,8 @@ class Filesys
       else
         case `file -L #{file}`
         when /gzip/
-          ios = Zlib::GzipReader.new File.open(file, mode, options)
+          ios = IO.popen("gzip -cd #{file}")
         when /bzip/
-          # ios = Bzip2::Reader.new File.open(file, mode, options)   # TODO this method is buggy, investigate
           ios = IO.popen("bzcat #{file}")
         else
           ios = File.open(file, mode, options)