def test_complex_job():
cmd = 'cut -hf --someflag {1,2,3||1,2}'
jobs = []
files = [parser.File('file1', '1', '1'),
parser.File('file2', '2', '2'),
parser.File('file3', '3', '3'),
parser.File('file4', '4', '4'),
parser.File('file5', '5', '5')]
paths=[]
jobs = parser.parse_job(cmd, jobs, files, paths)
cmd = 'python somescript -f {o:*.counts} {2,4||5}'
jobs = parser.parse_job(cmd, jobs, files, paths)
len(jobs).should.equal(4)
jobs[0].raw_cmd.should.equal('cut -hf --someflag {in}')
jobs[3].raw_cmd.should.equal('python somescript -f {out} {in}')
jobs[1].depends_on.should.contain(jobs[0])
jobs[2].depends_on.should.contain(jobs[0])
jobs[2].depends_on.should.contain(jobs[1])
len(jobs[3].depends_on).should.equal(0)
def test_parse_job():
cmd = 'cut -hf --someflag {1,2,3||1,2||2,3,4}'
jobs = []
files = [parser.File('file1', '1', '1'),
parser.File('file2', '2', '2'),
parser.File('file3', '3', '3'),
parser.File('file4', '4', '4')]
paths=[]
jobs = parser.parse_job(cmd, jobs, files, paths)
len(jobs).should.equal(3)
jobs[0].raw_cmd.should.equal('cut -hf --someflag {in}')
jobs[1].depends_on.should.contain(jobs[0])
jobs[2].depends_on.should.contain(jobs[0])
jobs[2].depends_on.should.contain(jobs[0])
jobs[2].depends_on.should.contain(jobs[1])
