/ruffus/test/test_transform_inputs.py
https://code.google.com/p/ruffus/ · Python · 207 lines · 128 code · 53 blank · 26 comment · 11 complexity · ce5eabd2891c0964a0614191979395ff MD5 · raw file
- #!/usr/bin/env python
- """
- test_transform_with_no_re_matches.py
-
- test messages with no regular expression matches
-
- """
- #88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888
- # options
- #88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888
- from optparse import OptionParser
- import sys, os
- import os.path
- import StringIO
- import re,time
- # add self to search path for testing
- exe_path = os.path.split(os.path.abspath(sys.argv[0]))[0]
- sys.path.insert(0,os.path.abspath(os.path.join(exe_path,"..", "..")))
- if __name__ == '__main__':
- module_name = os.path.split(sys.argv[0])[1]
- module_name = os.path.splitext(module_name)[0];
- else:
- module_name = __name__
- import ruffus
- print "\tRuffus Version = ", ruffus.__version__
- parser = OptionParser(version="%%prog v1.0, ruffus v%s" % ruffus.ruffus_version.__version)
- parser.add_option("-t", "--target_tasks", dest="target_tasks",
- action="append",
- default = list(),
- metavar="JOBNAME",
- type="string",
- help="Target task(s) of pipeline.")
- parser.add_option("-f", "--forced_tasks", dest="forced_tasks",
- action="append",
- default = list(),
- metavar="JOBNAME",
- type="string",
- help="Pipeline task(s) which will be included even if they are up to date.")
- parser.add_option("-j", "--jobs", dest="jobs",
- default=1,
- metavar="jobs",
- type="int",
- help="Specifies the number of jobs (commands) to run simultaneously.")
- parser.add_option("-v", "--verbose", dest = "verbose",
- action="count", default=0,
- help="Print more verbose messages for each additional verbose level.")
- parser.add_option("-d", "--dependency", dest="dependency_file",
- #default="simple.svg",
- metavar="FILE",
- type="string",
- help="Print a dependency graph of the pipeline that would be executed "
- "to FILE, but do not execute it.")
- parser.add_option("-F", "--dependency_graph_format", dest="dependency_graph_format",
- metavar="FORMAT",
- type="string",
- default = 'svg',
- help="format of dependency graph file. Can be 'ps' (PostScript), "+
- "'svg' 'svgz' (Structured Vector Graphics), " +
- "'png' 'gif' (bitmap graphics) etc ")
- parser.add_option("-n", "--just_print", dest="just_print",
- action="store_true", default=False,
- help="Print a description of the jobs that would be executed, "
- "but do not execute them.")
- parser.add_option("-M", "--minimal_rebuild_mode", dest="minimal_rebuild_mode",
- action="store_true", default=False,
- help="Rebuild a minimum of tasks necessary for the target. "
- "Ignore upstream out of date tasks if intervening tasks are fine.")
- parser.add_option("-K", "--no_key_legend_in_graph", dest="no_key_legend_in_graph",
- action="store_true", default=False,
- help="Do not print out legend and key for dependency graph.")
- parser.add_option("-H", "--draw_graph_horizontally", dest="draw_horizontally",
- action="store_true", default=False,
- help="Draw horizontal dependency graph.")
- parameters = [
- ]
- #88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888
- # imports
- #88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888
- import StringIO
- import re
- import operator
- import sys,os
- from collections import defaultdict
- import random
- sys.path.append(os.path.abspath(os.path.join(exe_path,"..", "..")))
- from ruffus import *
- # use simplejson in place of json for python < 2.6
- try:
- import json
- except ImportError:
- import simplejson
- json = simplejson
- #88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888
- # Main logic
- #88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888
- # get help string
- f =StringIO.StringIO()
- parser.print_help(f)
- helpstr = f.getvalue()
- (options, remaining_args) = parser.parse_args()
- #88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888
- # Tasks
- #88888888888888888888888888888888888888888888888888888888888888888888888888888888888888888
- tempdir = "tempdir/"
- @follows(mkdir(tempdir))
- @files([[None, tempdir+ "a.1"], [None, tempdir+ "b.1"]])
- def task1(i, o):
- open(o, "w")
- @follows(mkdir(tempdir))
- @files([[None, tempdir+ "c.1"], [None, tempdir+ "d.1"]])
- def task2(i, o):
- open(o, "w")
-
- @transform(task1, regex(r"(.*)"), inputs(((r"\1"), task2, "test_transform_inputs.*")), r"\1.output")
- def task3(i, o):
- names = ",".join(sorted(i))
- for f in o:
- open(o, "w").write(names)
-
- @merge((task3), tempdir + "final.output")
- def task4(i, o):
- o_file = open(o, "w")
- for f in sorted(i):
- o_file.write(f +":" +open(f).read() + ";")
- import unittest
- class Test_task(unittest.TestCase):
- def tearDown (self):
- """
- """
- import glob
- for f in glob.glob(tempdir + "*"):
- os.unlink(f)
- os.rmdir(tempdir)
- def test_task (self):
- pipeline_run([task4], options.forced_tasks, multiprocess = options.jobs,
- verbose = options.verbose)
-
- correct_output = "tempdir/a.1.output:tempdir/a.1,tempdir/c.1,tempdir/d.1,test_transform_inputs.py;tempdir/b.1.output:tempdir/b.1,tempdir/c.1,tempdir/d.1,test_transform_inputs.py;"
- real_output = open(tempdir + "final.output").read()
- self.assert_(correct_output == real_output)
-
- if __name__ == '__main__':
- if options.just_print:
- pipeline_printout(sys.stdout, options.target_tasks, options.forced_tasks,
- verbose = options.verbose,
- gnu_make_maximal_rebuild_mode = not options.minimal_rebuild_mode)
- elif options.dependency_file:
- pipeline_printout_graph ( open(options.dependency_file, "w"),
- options.dependency_graph_format,
- options.target_tasks,
- options.forced_tasks,
- draw_vertically = not options.draw_horizontally,
- gnu_make_maximal_rebuild_mode = not options.minimal_rebuild_mode,
- no_key_legend = options.no_key_legend_in_graph)
- else:
- sys.argv= sys.argv[0:1]
- unittest.main()