jvfe

This a basic guideline to set some basic configurations in order to run nextflow pipelines at the NPAD.

First, I'm assuming that your analysis will take more than 9 GB (your home quota), then you'll need to use the scratch disk to store the results and the singularity images.

0. Install conda and nf-core

Here I recomend to use conda to install the nextflow and nf-core.

Download and install conda: https://docs.conda.io/en/latest/miniconda.html

Install nf-core with conda: https://nf-co.re/docs/usage/installation#bioconda-installation

jvfe

import pandas as pd
import datetime

def get_covid_data_jhu(dt_ini, dt_fim, us_columns = True, country = None):
    
    date_range = pd.date_range(start = dt_ini, end = dt_fim).to_list()
    string_range = [str(d.date().strftime("%m-%d-%Y")) for d in date_range]
    
    full_data_list = []
    for dat in string_range: