def test_is_not_directory(self):
# Arrange
text = "abc"
# Act
it_is_not = _util.isDirectory(text)
# Assert
self.assertFalse(it_is_not)
def test_is_not_directory(self):
# Arrange
text = "abc"
# Act
it_is_not = _util.isDirectory(text)
# Assert
self.assertFalse(it_is_not)
def test_is_directory(self):
# Arrange
directory = "Tests"
# Act
it_is = _util.isDirectory(directory)
# Assert
self.assertTrue(it_is)
def test_is_directory(self):
# Arrange
directory = "Tests"
# Act
it_is = _util.isDirectory(directory)
# Assert
self.assertTrue(it_is)
def test_is_not_directory():
# Arrange
text = "abc"
# Act
it_is_not = _util.isDirectory(text)
# Assert
assert not it_is_not
def test_is_directory():
# Arrange
directory = "Tests"
# Act
it_is = _util.isDirectory(directory)
# Assert
assert it_is
def load_path(filename):
"Load a font file, searching along the Python path."
for dir in sys.path:
if isDirectory(dir):
if not isinstance(filename, "utf-8"):
if bytes is str:
filename = filename.encode("utf-8")
else:
filename = filename.decode("utf-8")
try:
return load(os.path.join(dir, filename))
except IOError:
pass
raise IOError("cannot find font file")
def load_path(filename):
"""
Load font file. Same as :py:func:`~PIL.ImageFont.load`, but searches for a
bitmap font along the Python path.
:param filename: Name of font file.
:return: A font object.
:exception IOError: If the file could not be read.
"""
for dir in sys.path:
if isDirectory(dir):
if not isinstance(filename, str):
if bytes is str:
filename = filename.encode("utf-8")
else:
filename = filename.decode("utf-8")
try:
return load(os.path.join(dir, filename))
except IOError:
pass
raise IOError("cannot find font file")
def load_path(filename):
"""
Load font file. Same as :py:func:`~PIL.ImageFont.load`, but searches for a
bitmap font along the Python path.
:param filename: Name of font file.
:return: A font object.
:exception IOError: If the file could not be read.
"""
for directory in sys.path:
if isDirectory(directory):
if not isinstance(filename, str):
if bytes is str:
filename = filename.encode("utf-8")
else:
filename = filename.decode("utf-8")
try:
return load(os.path.join(directory, filename))
except IOError:
pass
raise IOError("cannot find font file")
def standardization(standardization_input, standardization_output):
#df_=df.loc[df['unzip'] == 'complete']
work_dirs = [
f for f in os.listdir(standardization_input)
if isDirectory(os.path.join(standardization_input, f))
]
for work_dir in work_dirs:
work_dir_output = os.path.join(standardization_output, work_dir)
if not os.path.exists(work_dir_output):
os.makedirs(work_dir_output)
update_folder = os.path.join(standardization_input, work_dir)
folders = [
f for f in os.listdir(update_folder)
if isDirectory(os.path.join(update_folder, f))
]
for sub_folder in folders:
output_folder = os.path.join(work_dir_output, sub_folder)
if not os.path.exists(output_folder):
os.makedirs(output_folder)
sub_folder = os.path.join(update_folder, sub_folder)
files = [
f for f in os.listdir(sub_folder)
if os.path.isfile(os.path.join(sub_folder, f))
]
for file_name in files:
if (file_name.endswith(".xml")):
file_path = os.path.join(sub_folder, file_name)
with open(file_path, 'r') as xml_file:
try:
file_name = file_name[:-4]
docXml = ET.parse(xml_file)
print("Processing pmid:" + file_path)
root = docXml.getroot()
xml_string = ET.tostring(root,
encoding='utf-8',
method='xml')
o = xmltodict.parse(xml_string, encoding='utf-8')
jsonString = json.dumps(o, indent=4)
json_file = open(
output_folder + "/" + file_name + ".json", 'w')
json_file.write(jsonString)
json_file.flush()
json_file.close()
txt = ET.tostring(root,
encoding='utf-8',
method='text')
txt_file = open(
output_folder + "/" + file_name + ".txt", 'w')
txt_file.write(txt)
txt_file.flush()
txt_file.close()
'''
df.at[index,'name']=pmc_id
df.at[index,'date']=str(datetime.now().date())
df.at[index,'time']=str(datetime.now().time())
df.at[index,'standardization']="complete"
df.at[index,'txt_path']=file_path
df.at[index,'json_path']=file_path
df.to_csv(result_file)
'''
except Exception as inst:
print "Error Generando el JSON PMID " + file
print inst
x = inst.args
print x
