def main():
user_home = find_home_dir()
project_dp = os.path.join(user_home, 'pdb')
uni_dp = os.path.join(project_dp, 'uni_data')
tsv_dp = os.path.join(project_dp, 'tsv_data')
working_dp = os.path.join(project_dp, 'working')
dirs = ProjectFolders(
user_home=user_home,
project_home=project_dp,
uni_data=uni_dp,
tsv_data=tsv_dp,
working=working_dp
)
create_folders(dirs)
fetch_and_write_files(dirs)
initial_filtering(dirs)
fetcher = UniProtFetcher(dirs)
fetcher.fetch_fasta_files()
second_filtering(dirs)
final_filtering(dirs)
uniprot_composite(dirs)
print("Processing finished successfully.")
return None
def _generate_dir_names(self, project_name='pdb'):
user_home = find_home_dir()
project_dp = os.path.join(user_home, 'pdb')
uni_dp = os.path.join(project_dp, 'uni_data')
tsv_dp = os.path.join(project_dp, 'tsv_data')
working_dp = os.path.join(project_dp, 'working')
self.dirs = ProjectFolders(
user_home=user_home,
project_home=project_dp,
uni_data=uni_dp,
tsv_data=tsv_dp,
working=working_dp
)
return None
def _create_logfile_path(log_file_name):
"""Create a path name for a log handler in user home."""
home_dp = find_home_dir()
log_path = os.path.join(home_dp, log_file_name)
return log_path