Nanguage

"""
Add subtitles to video.

Subtitles files should be in same directory with videos,
and with same file name.

usage:
    $ python add_subtitles.py INPUT_DIR OUTPUT_DIR

"""

Nanguage

#!/bin/bash

# install CUDA Toolkit v9.0
# instructions from https://developer.nvidia.com/cuda-downloads (linux -> x86_64 -> Ubuntu -> 16.04 -> deb)
CUDA_REPO_PKG="cuda-repo-ubuntu1604-9-0-local_9.0.176-1_amd64-deb"
wget https://developer.nvidia.com/compute/cuda/9.0/Prod/local_installers/${CUDA_REPO_PKG}
sudo dpkg -i ${CUDA_REPO_PKG}
sudo apt-key adv --fetch-keys http://developer.download.nvidia.com/compute/cuda/repos/ubuntu1604/x86_64/7fa2af80.pub
sudo apt-get update
sudo apt-get -y install cuda-9-0

Nanguage

#!/usr/bin/env python

"""
A simple chat room.
https://codeburst.io/building-your-first-chat-application-using-flask-in-7-minutes-f98de4adfa5d

$ pip install flask flask-socketio
$ python chatroom.py

Servies run on http://127.0.0.1:5000

Nanguage

import requests
import re
import os
from concurrent.futures import ThreadPoolExecutor

import pandas as pd
from tqdm import tqdm


def fetch_page(base_url):

Nanguage

import attr
import typing
from collections import defaultdict

@attr.s(auto_attribs=True)
class GFF3Record:
    seq_id : str = ""
    source : str = ""
    type_ : str = ""
    start : int = 0

Nanguage

"""
Fetch pictures in Douban Album
    via Douban API V2(https://douban-api-docs.zce.me/photo.html)
"""
import os
import sys
import json
from typing import Dict, List, Iterator, Tuple
import shutil
from concurrent.futures import ThreadPoolExecutor

Nanguage

import os
import re
from typing import Iterable, Tuple, Optional, Union, Callable, TypeVar
from functools import partial
from contextlib import ContextDecorator
from tqdm.auto import tqdm

Bin = Tuple[str, int, int]
Bigwig = "pyBigWig.bigWigFile"
BinValue = Tuple[Bin, float]

Nanguage

import typing as t
from pathlib import Path
import fire
import mechanicalsoup
from bs4 import BeautifulSoup
from tqdm import tqdm

browser = mechanicalsoup.StatefulBrowser()

base_urls = {

Nanguage

library(GenomicRanges)
library(ggbio)

pairs.df <- read.table("D:/tmp/ggbio_demo/ZQL-49_final.txt",header=FALSE, sep="\t")[,1:7]
colnames(pairs.df) <- c("read", "chr1", "pos1", "chr2", "pos2", "strand1", "strand2")

chromsize.df <- read.csv("D:/tmp/ggbio_demo/susScr11_ASFV_noun.fa.csv") 

chromsize.gr <- GRanges(
  seqnames = chromsize.df$seqnames,

Nanguage

from nd2reader import ND2Reader
import matplotlib.pyplot as plt
from pathlib import Path
import numpy as np
import scipy.ndimage as ndi
import skimage.filters as F
import skimage.morphology as M
import skimage.measure as Ms
import skimage.exposure as E
from skimage.morphology.selem import disk