def test_Weeder(self): """ test Weeder """ m = Weeder() bin = locate_tool("Weeder") if bin and self.isInstalled(bin): (motifs, stderr, stdout) = m._run_program(bin, self.fa, ".") self.assert_(len(motifs) > 0) else: sys.stderr.write("Skipping Weeder test\n")
def test_Weeder(self): """ test Weeder """ m = Weeder() bin = locate_tool("Weeder") if bin and self.isInstalled(bin): (motifs, stderr, stdout) = m.run(self.fa, ".") self.assert_(len(motifs) > 0) else: sys.stderr.write("Skipping Weeder test\n")
def test_MDmodule(self): """ test MDmodule """ m = MDmodule() bin = locate_tool("MDmodule") if bin and self.isInstalled(bin): (motifs, stderr, stdout) = m._run_program(bin, self.fa, ".") #print motifs self.assert_(len(motifs) > 0) else: sys.stderr.write("Skipping MDmodule test\n")
def test_MotifSampler(self): """ test MotifSampler """ m = MotifSampler() bin = locate_tool("MotifSampler") if bin and self.isInstalled(bin): (motifs, stderr, stdout) = m.run(self.fa, ".", {"background":os.path.join(self.data_dir, "test.bg")}) #print motifs self.assert_(len(motifs) > 0) else: sys.stderr.write("Skipping MotifSampler test\n")
def test_MDmodule(self): """ test MDmodule """ m = MDmodule() bin = locate_tool("MDmodule") if bin and self.isInstalled(bin): (motifs, stderr, stdout) = m.run(self.fa, ".") #print motifs self.assert_(len(motifs) > 0) else: sys.stderr.write("Skipping MDmodule test\n")
def test_meme(self): """ test meme """ m = Meme() bin = locate_tool("Meme") if bin and self.isInstalled(bin): (motifs, stderr, stdout) = m.run(self.fa, ".") #print "meme:", motifs self.assert_(len(motifs) > 0) else: sys.stderr.write("Skipping meme test\n")
def test_MotifSampler(self): """ test MotifSampler """ m = MotifSampler() bin = locate_tool("MotifSampler") if bin and self.isInstalled(bin): (motifs, stderr, stdout) = m._run_program( bin, self.fa, ".", {"background": os.path.join(self.data_dir, "test.bg")}) #print motifs self.assert_(len(motifs) > 0) else: sys.stderr.write("Skipping MotifSampler test\n")