X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=code_ruby%2Flib%2Fmaasha%2Ffilesys.rb;h=02a8a842f1157a9824052c589795c1630580ff90;hb=HEAD;hp=4f58898b91977a3dbc1695ed3191018b316bc34e;hpb=508d11515a4f8ac768829b56486c1b660b8f247e;p=biopieces.git

diff --git a/code_ruby/lib/maasha/filesys.rb b/code_ruby/lib/maasha/filesys.rb
index 4f58898..02a8a84 100644
--- 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)
@@ -61,14 +58,15 @@ class Filesys
       if file == '-'
         ios = STDIN
       else
-        case `file #{file}`
+        case `file -Lk #{file}`
         when /gzip/
-          ios = Zlib::GzipReader.new File.open(file, mode, options)
+          ios = IO.popen("gzip -cd #{file}", :external_encoding=>"EUC-JP")
         when /bzip/
-          # ios = Bzip2::Reader.new File.open(file, mode, options)   # TODO this method is buggy, investigate
           ios = IO.popen("bzcat #{file}")
-        else
+        when /ASCII/
           ios = File.open(file, mode, options)
+        else
+          raise "Unknown file type: #{`file -L #{file}`}"
         end
       end
     end