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#!/bin/bash

set -euo pipefail

rm -rf genbank/

rsync \
        --archive \
        --progress \
        --recursive \

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#!/bin/bash

set -euo pipefail

function get_source() {
        curl --silent "http://greengenes.secondgenome.com/downloads/database/13_5"
}

function get_urls() {
        get_source | grep 'https:' | grep s3 | cut -d '"' -f 2

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#!/usr/bin/env Rscript

library(R6)
library(testthat)


Argument <- R6Class('Argument',
  public = list(
    flag = NA,
    help = NA,

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package main

import (
  "os"
  "fmt"
  "bufio"
)

func main() {

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class DNA:

    def __init__(self, sequence: str) -> None:
        self.sequence = str(sequence).lower()

    @property
    def reverse(self) -> 'DNA':
        return DNA(self.sequence[::-1])

    @property

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#!/usr/bin/env python3

import requests
from bs4 import BeautifulSoup

url = 'http://www.berkeleybowl.com/daily-hot-soup'

res = requests.get(url)

soup = BeautifulSoup(res.content, 'html5lib')

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class Render
  def self.[](engine:)
    p engine
  end
end

Render[engine: 'doot']

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class Boat
  class << self
    def <=> boat
      boat
    end

    def [] boat
      boat
    end

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#!/usr/bin/env ruby

# download all genomes from ncbi using 8 processes
# ./ncbi-fetch.rb | xargs -I {} -n1 -p 8 wget {}

File.open('assembly_summary.txt').each do |line|
  row = line.strip.split("\t")
  base_url = row[19]
  next if base_url.nil?
  dir = base_url.split('/').last

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test: .PHONY
	@python -m 'nose' --nocapture

ftest: .PHONY
	@python -m 'nose' --with-focus --nocapture

clean:
	@git clean -f

.PHONY: