oolonek

                  /-1
                 |
            /- /-|-- /- /-2364
           |     |
           |      \-3375
           |
           |      /-2062
           |   /-|
           |  |   \- /-1882

oolonek

# Required global libs

import os
import sys
import time
import numpy as np
import pandas as pd


import tqdm

oolonek

from bioregistry import normalize_prefix

# Doesn't affect canonical prefixes
assert 'ncbitaxon' == normalize_prefix('ncbitaxon')

# This works for uppercased prefixes, like:
assert 'chebi' == normalize_prefix("CHEBI")

# This works for mixed case prefixes like
assert 'fbbt' == normalize_prefix("FBbt")

oolonek

import pandas as pd
import urllib.request
import zipfile




# We fetch the ncbi taxon list

print('Beginning file download with urllib2...')

oolonek

import subprocess
import shlex
import zipfile
import os
import pandas as pd

def gnps_download_results(job_id, output_folder):
    # This function download GNPS molecular networking job results locally 
    # and detect if the job is classical or feature-based Molecular networking.
    # It then creates instances of the network and annotation tables.

oolonek

#!/bin/sh
task status:completed end:today export | jq '.[].description' --raw-output