pcm2pwm.rb in bioinform-0.1.13

- old
+ new
@@ -1,47 +1,47 @@
-require_relative '../../bioinform'
-require 'docopt'
-require 'shellwords'
-
-module Bioinform
-  module CLI  
-    module PCM2PWM
-      extend Bioinform::CLI::Helpers
-      def self.main(argv)
-        doc = <<-DOCOPT
-          PCM to PWM converter.
-          It transforms files with PCMs into files with PWMs. Folder for resulting files to save files can be specified. Resulting PWM files have the same name as original file but have another extension (.pwm by default).
-          When filelist is empty, it's obtained from STDIN. One can use it: `ls -b pcm_folder/*.pcm | pcm2pwm` (ls -b option escape spaces in filenames)
-
-          Usage:
-            pcm2pwm [options] [<pcm-files>...]
-
-          Options:
-            -h --help           Show this screen.
-            -e --extension EXT  Extension of output files [default: pwm]
-            -f --folder FOLDER  Where to save output files [default: .]
-        DOCOPT
-
-        doc.gsub!(/^#{doc[/\A +/]}/,'')
-        options = Docopt::docopt(doc, argv: argv)
-
-        pcm_files = options['<pcm-files>']
-        folder = options['--folder']
-        extension = options['--extension']
-
-        Dir.mkdir(folder)  unless Dir.exist?(folder)
-        filelist = (pcm_files.empty?)  ?  $stdin.read.shellsplit  :  pcm_files
-
-        filelist.each do |filename|
-          pwm = Bioinform::PCM.new( File.read(filename) ).to_pwm
-          File.open(change_folder_and_extension(filename, extension, folder), 'w') do |f|
-            f.puts pwm
-          end
-        end
-
-      rescue Docopt::Exit => e
-        puts e.message
-      end
-
-    end
-  end
+require_relative '../../bioinform'
+require 'docopt'
+require 'shellwords'
+
+module Bioinform
+  module CLI  
+    module PCM2PWM
+      extend Bioinform::CLI::Helpers
+      def self.main(argv)
+        doc = <<-DOCOPT
+          PCM to PWM converter.
+          It transforms files with PCMs into files with PWMs. Folder for resulting files to save files can be specified. Resulting PWM files have the same name as original file but have another extension (.pwm by default).
+          When filelist is empty, it's obtained from STDIN. One can use it: `ls -b pcm_folder/*.pcm | pcm2pwm` (ls -b option escape spaces in filenames)
+
+          Usage:
+            pcm2pwm [options] [<pcm-files>...]
+
+          Options:
+            -h --help           Show this screen.
+            -e --extension EXT  Extension of output files [default: pwm]
+            -f --folder FOLDER  Where to save output files [default: .]
+        DOCOPT
+
+        doc.gsub!(/^#{doc[/\A +/]}/,'')
+        options = Docopt::docopt(doc, argv: argv)
+
+        pcm_files = options['<pcm-files>']
+        folder = options['--folder']
+        extension = options['--extension']
+
+        Dir.mkdir(folder)  unless Dir.exist?(folder)
+        filelist = (pcm_files.empty?)  ?  $stdin.read.shellsplit  :  pcm_files
+
+        filelist.each do |filename|
+          pwm = Bioinform::PCM.new( File.read(filename) ).to_pwm
+          File.open(change_folder_and_extension(filename, extension, folder), 'w') do |f|
+            f.puts pwm
+          end
+        end
+
+      rescue Docopt::Exit => e
+        puts e.message
+      end
+
+    end
+  end
 end
\ No newline at end of file