panphlan_download_pangenome.py downloads the panphlan_pangenomes_links.tsv file to the current working directory:
def find_url(query, verbose):
if verbose:
print("Retrieving mapping file...")
mapping_file = os.path.basename(DOWNLOAD_URL).replace('?dl=1', '')
download(DOWNLOAD_URL, mapping_file, overwrite=True, verbose=False)
IN = open(mapping_file, mode='r')
If 2 panphlan_download_pangenome.py jobs are running in the same directory (eg., if someone is downloading many pangenomes at the same time), then the panphlan_pangenomes_links.tsv file can be over-written while jobs are trying to read the file via IN = open(mapping_file, mode='r'), which will cause those jobs to die.
As a minor note, the user would likely want to have the panphlan_pangenomes_links.tsv file in the output directory instead of in the current working directory.
panphlan_download_pangenome.pydownloads thepanphlan_pangenomes_links.tsvfile to the current working directory:If 2
panphlan_download_pangenome.pyjobs are running in the same directory (eg., if someone is downloading many pangenomes at the same time), then thepanphlan_pangenomes_links.tsvfile can be over-written while jobs are trying to read the file viaIN = open(mapping_file, mode='r'), which will cause those jobs to die.As a minor note, the user would likely want to have the
panphlan_pangenomes_links.tsvfile in the output directory instead of in the current working directory.