def testBarcodeFile(self):
del ERRORS[:]
del OUTPUT[:]
cysbar._writeError = _captureError
cysbar._writeOutput = _captureOutput
positions = [5]
barcodes = []
rc = cysbar.reconstruct(["../data/test/seq1_pos5abc123.fa"], positions, barcodes, "../data/test/barcodes2.txt", None, residueSeparator, None)
self.assertEqual(rc, 0)
self.assertEqual(len(OUTPUT), 2)
self.assertEqual(OUTPUT[0], ">seq1")
self.assertEqual(OUTPUT[1], "RDESQSHKFKGTIR---XSNRDCESQSHKFKGTCIR---XSNCASVCXS-E-GF--NGGHCRG--RRCYCTAK-")
def testBarcodeParams(self):
del ERRORS[:]
del OUTPUT[:]
cysbar._writeError = _captureError
cysbar._writeOutput = _captureOutput
positions = [5]
barcodes = BUILT_IN_BARCODES[:1]
rc = cysbar.reconstruct(["../data/test/seq1_pos5wwyhwyyhmm.fa"], positions, barcodes, None, None, residueSeparator, None)
self.assertEqual(rc, 0)
self.assertEqual(len(OUTPUT), 2)
self.assertEqual(OUTPUT[0], ">seq1")
self.assertEqual(OUTPUT[1], "RDESQSHKFKGTIR---XSNRDCESQSHKFKGTCIR---XSNCASVCXS-E-GF--NGGHCRG--RRCYCTAK-")
