1 # Copyright (C) 2007-2011 Martin A. Hansen.
3 # This program is free software; you can redistribute it and/or
4 # modify it under the terms of the GNU General Public License
5 # as published by the Free Software Foundation; either version 2
6 # of the License, or (at your option) any later version.
8 # This program is distributed in the hope that it will be useful,
9 # but WITHOUT ANY WARRANTY; without even the implied warranty of
10 # MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
11 # GNU General Public License for more details.
13 # You should have received a copy of the GNU General Public License
14 # along with this program; if not, write to the Free Software
15 # Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
17 # http://www.gnu.org/copyleft/gpl.html
19 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
21 # This software is part of the Biopieces framework (www.biopieces.org).
23 # >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>><<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<<
28 # Error class for all exceptions to do with Filesys.
29 class FilesysError < StandardError; end
34 # Class method that returns a path to a unique temporary file.
35 # If no directory is specified reverts to the systems tmp directory.
36 def self.tmpfile(tmp_dir = ENV["TMPDIR"])
40 path = tmp_dir + [user, time + pid, pid].join("_") + ".tmp"
47 options = args.shift || {}
50 case options[:compress]
52 ios = Zlib::GzipWriter.new File.open(file, mode, options)
54 ios = Bzip2::Writer.new File.open(file, mode, options)
56 ios = File.open(file, mode, options)
64 ios = Zlib::GzipReader.new File.open(file, mode, options)
66 ios = Bzip2::Reader.new File.open(file, mode, options)
68 ios = File.open(file, mode, options)
100 # Iterator method for parsing entries.
102 while entry = get_entry do