| |
|
|
| |
| import os |
| import importlib |
| import shutil |
| import subprocess |
| import sys |
|
|
| try: |
| import git |
| import yaml |
| from termcolor import colored |
| import colorama |
| colorama.init() |
| except: |
| print("Please ensure that conda env is activated and that git,") |
| print("yaml, termcolor, and colorama are in conda_env.yaml") |
| raise Exception |
|
|
| ROOT = '..' |
| |
| spec = importlib.util.spec_from_file_location('gslab_make', |
| os.path.join(ROOT, 'lib', 'gslab_make', '__init__.py')) |
| gs = importlib.util.module_from_spec(spec) |
| sys.modules['gslab_make'] = gs |
| spec.loader.exec_module(gs) |
|
|
| default_executables = gs.private.metadata.default_executables |
| format_message = gs.private.utility.format_message |
|
|
|
|
| |
| def parse_yaml_files(config = '../config.yaml', config_user = '../config_user.yaml'): |
| if not os.path.isfile(config_user): |
| shutil.copy('config_user_template.yaml', config_user) |
|
|
| config = yaml.load(open(config, 'rb'), Loader = yaml.Loader) |
| config_user = yaml.load(open(config_user, 'rb'), Loader = yaml.Loader) |
|
|
| return(config, config_user) |
|
|
|
|
| def check_executable(executable): |
| if os.name == 'posix': |
| try: |
| subprocess.check_output('which %s' % executable, shell = True) |
| except: |
| error_message = "Please set up '%s' for command-line use on your system" % executable |
| error_message = format_message(error_message) |
| raise gs.private.exceptionclasses.ColoredError(error_message) |
| if os.name == 'nt': |
| try: |
| subprocess.check_output('where %s' % executable, shell = True) |
| except: |
| try: |
| subprocess.check_output('dir %s' % executable, shell = True) |
| except: |
| error_message = "Please set up `%s` for command-line use on your system" % executable |
| error_message = format_message(error_message) |
| raise gs.private.exceptionclasses.ColoredError(error_message, '') |
| |
|
|
| def check_software(config, config_user): |
| default_executables[os.name].update(config_user['local']['executables']) |
| |
| if config['git_lfs_required']: |
| check_executable(default_executables[os.name]['git-lfs']) |
|
|
| software_list = config['software_required'] |
| software_list = {key:value for (key, value) in software_list.items() if value == True} |
| software_list = {key:default_executables[os.name][key] for (key, value) in software_list.items()} |
|
|
| for software in software_list.values(): |
| check_executable(software) |
|
|
|
|
| def check_external_paths(config_user): |
| if config_user['external']: |
| for path in config_user['external'].values(): |
| if not os.path.exists(path): |
| error_message = 'ERROR! Path `%s` listed in `config_user.yaml` but cannot be found.' % path |
| error_message = format_message(error_message) |
| raise gs.private.exceptionclasses.ColoredError(error_message) |
|
|
|
|
| def configuration(): |
| (config, config_user) = parse_yaml_files() |
| check_software(config, config_user) |
| check_external_paths(config_user) |
| message = format_message('SUCCESS! Setup complete.') |
| print(colored(message, 'green')) |
|
|
|
|
| |
| configuration() |
