def convert(self, filename):
ok = False
try:
(event, xml) = scorer_to_usebio.convert(filename)
self.save(event, xml)
ok = True
except IOError as err:
logging.error("IO error: %s", err)
except SyntaxError as err:
logging.info(
"The selected file '%s' does not look like a valid Scorer results file",
filename)
logging.error("Error details: %s", err)
except scorer_to_usebio.InvalidResultsException as err:
logging.error("Conversion error: %s", err)
logging.info(
"Please raise a support ticket, including the results file you were trying to convert"
)
except scorer_to_usebio.InvalidEventType as err:
logging.error("Could not convert results: %s", err)
logging.info(
"Only match point scored events are supported at this time")
if ok:
self.deleteButton.setEnabled(True)
self.statusBar().showMessage(
ScorerConverter.status_text['converted_ok'])
else:
self.deleteButton.setEnabled(False)
self.statusBar().showMessage(
ScorerConverter.status_text['converted_error'])
def test(self):
examples = []
for root, dirs, files in os.walk(EXAMPLES_DIR):
for file in files:
path = os.path.join(root, file)
if os.path.isfile(path) and path.endswith('.xml'):
examples.append(path)
assert len(examples) > 0
for path in examples:
converted = scorer_to_usebio.convert(path, False)[1]
expected = ET.parse(os.path.join(CONVERTED_DIR, os.path.basename(path)))
converted_text = ET.tostring(converted.getroot())
expected_text = ET.tostring(expected.getroot())
fail_msg = "conversion mismatch for example file {}".format(os.path.normpath(path))
self.assertEqual(converted_text, expected_text, msg=fail_msg)
def test(self):
examples = []
for root, dirs, files in os.walk(EXAMPLES_DIR):
for file in files:
path = os.path.join(root, file)
if os.path.isfile(path) and path.endswith('.xml'):
examples.append(path)
assert len(examples) > 0
for path in examples:
converted = scorer_to_usebio.convert(path, False)[1]
expected = ET.parse(
os.path.join(CONVERTED_DIR, os.path.basename(path)))
converted_text = ET.tostring(converted.getroot())
expected_text = ET.tostring(expected.getroot())
fail_msg = "conversion mismatch for example file {}".format(
os.path.normpath(path))
self.assertEqual(converted_text, expected_text, msg=fail_msg)
def convert(self, filename):
ok = False
try:
(event, xml) = scorer_to_usebio.convert(filename)
self.save(event, xml)
ok = True
except IOError as err:
logging.error("IO error: %s", err)
except SyntaxError as err:
logging.info("The selected file '%s' does not look like a valid Scorer results file", filename)
logging.error("Error details: %s", err)
except scorer_to_usebio.InvalidResultsException as err:
logging.error("Conversion error: %s", err)
logging.info("Please raise a support ticket, including the results file you were trying to convert")
except scorer_to_usebio.InvalidEventType as err:
logging.error("Could not convert results: %s", err)
logging.info("Only match point scored events are supported at this time")
if ok:
self.deleteButton.setEnabled(True)
self.statusBar().showMessage(ScorerConverter.status_text['converted_ok'])
else:
self.deleteButton.setEnabled(False)
self.statusBar().showMessage(ScorerConverter.status_text['converted_error'])
