def main():
make_dir("./data/")
# print sorted morbidmap
genes = parse_morbidmap()
with open("./data/sorted_morbidmap.txt", "w") as out:
for dmim, gmims in sorted(genes.items()):
out.write("#{0}|{1}\n".format(dmim, "|".join(gmims)))
# determine the distribution of # of genes per disease
names = defaultdict(set)
for dmim, gmims in genes.items():
names[len(gmims)].add(dmim)
for i, dmims in names.items():
print "i {0} len() {1}".format(i, len(dmims))
def convert_csv_to_xls(csv_file_path, output_dir):
"""
将csv文件转换成xls文件。
:param csv_file_path: csv文件路径或者csv文件所在的目录。
:param output_dir: 输出目录。
:return: =0表示成功，否则失败。
"""
if not os.path.exists(csv_file_path):
print('csv file %s not exist' % csv_file_path)
return -1
if os.path.isfile(csv_file_path):
if file_util.make_dir(output_dir) != 0:
print('failed to make output dir %s' % output_dir)
return -1
base_filename = file_util.base_filename(csv_file_path)
xls_file_path = '%s%s%s%s' % (output_dir, os.path.sep, base_filename,
xls_filename_ext())
try:
workbook = xlsxwriter.Workbook(xls_file_path)
worksheet = workbook.add_worksheet()
with open(csv_file_path, 'rb') as f:
csv_content = csv.reader(f)
for row_idx, row in enumerate(csv_content):
for col_idx, cell in enumerate(row):
worksheet.write(row_idx, col_idx,
cell.strip().decode('utf-8'))
workbook.close()
print('=== convert ' + csv_file_path + ' to ' + xls_file_path +
' done ===')
return 0
except Exception as e:
print('exception: %s' % e)
return -1
else:
sub_csv_file_path_list = glob.glob(csv_file_path + os.path.sep +
'*.csv')
if 0 == len(sub_csv_file_path_list):
return -1
for i, f in enumerate(sub_csv_file_path_list):
convert_csv_to_xls(f, output_dir)
return 0
'INCLUDE',
'LIB',
'PATH',
]
for var in required_vars:
if not var in os.environ.keys():
raise Exception('%s environment variable must be set' % var)
# Windows custom toolchain requirements. See comments in gn_args.py.
gn_args['visual_studio_path'] = os.environ['GYP_MSVS_OVERRIDE_PATH']
gn_args['visual_studio_version'] = os.environ['GYP_MSVS_VERSION']
gn_args['visual_studio_runtime_dirs'] = os.environ['VS_CRT_ROOT']
gn_args['windows_sdk_path'] = os.environ['SDK_ROOT']
configs = GetAllPlatformConfigs(gn_args)
for dir, config in configs.items():
# Create out directories and write the args.gn file.
out_path = os.path.join(src_dir, 'out', dir)
make_dir(out_path, False)
args_gn_path = os.path.join(out_path, 'args.gn')
args_gn_contents = GetConfigFileContents(config)
write_file(args_gn_path, args_gn_contents)
# Generate the Ninja config.
cmd = ['gn', 'gen', os.path.join('out', dir)]
if 'GN_ARGUMENTS' in os.environ.keys():
cmd.extend(os.environ['GN_ARGUMENTS'].split(' '))
RunAction(src_dir, cmd)
if platform == 'windows':
issue_1999.apply(out_path)
'INCLUDE',
'LIB',
'PATH',
]
for var in required_vars:
if not var in os.environ.keys():
raise Exception('%s environment variable must be set' % var)
# Windows custom toolchain requirements. See comments in gn_args.py.
gn_args['visual_studio_path'] = os.environ['GYP_MSVS_OVERRIDE_PATH']
gn_args['visual_studio_version'] = os.environ['GYP_MSVS_VERSION']
gn_args['visual_studio_runtime_dirs'] = os.environ['VS_CRT_ROOT']
gn_args['windows_sdk_path'] = os.environ['SDK_ROOT']
configs = GetAllPlatformConfigs(gn_args)
for dir, config in configs.items():
# Create out directories and write the args.gn file.
out_path = os.path.join(src_dir, 'out', dir)
make_dir(out_path, False)
args_gn_path = os.path.join(out_path, 'args.gn')
args_gn_contents = GetConfigFileContents(config)
write_file(args_gn_path, args_gn_contents)
# Generate the Ninja config.
cmd = ['gn', 'gen', os.path.join('out', dir)]
if 'GN_ARGUMENTS' in os.environ.keys():
cmd.extend(os.environ['GN_ARGUMENTS'].split(' '))
RunAction(src_dir, cmd)
if platform == 'windows':
issue_1999.apply(out_path)
