alco

use std::io::fs::File;

enum ReadState {
    Normal,
    Newline,
    Skipline,
}

fn main() {
    let mut at = 0i;

knewter

---
- name: Create directory to put elixir in
  sudo: 'yes'
  shell: "mkdir -p /opt/elixir/v0.15.0"

- name: Install unzip
  apt: name=unzip state=present update_cache=true

- name: Unzip elixir release
  sudo: 'yes'

behe

defmodule ATGCCount do
  def count(sequence), do: cnt(String.to_char_list(sequence),0,0)
  def cnt([65|t],at,gc), do: cnt(t,at+1,gc)
  def cnt([84|t],at,gc), do: cnt(t,at+1,gc)
  def cnt([71|t],at,gc), do: cnt(t,at,gc+1)
  def cnt([67|t],at,gc), do: cnt(t,at,gc+1)
  def cnt([62|_],at,gc), do: {at,gc}
  def cnt([],at,gc), do: {at,gc}
  # def cnt(_,0,0), do: {0,0}
  def cnt([_|t], at, gc), do: cnt(t,at,gc)

Ismael-VC

#!/usr/bin/env julia


function gc_count(fasta::String)
    file = open(fasta, "r")
    lines = readall(file)
    gc = at = 0
    for c in lines.data
        if (c == 'G') || (c == 'C')
            gc += 1

lindenb

converting drugbank to TSV using XSLT and xsltstream http://lindenb.github.io/jvarkit/XsltStream.html

e.g:

java -jar dist/xsltstream.jar \
    -n '{http://www.drugbank.ca}drug' \
    -t drugbank2tsv.xsl \
    /path/to/full_database.xml
 

sgsfak

We couldn’t find that file to show.

lindenb

/*
Author: Pierre Lindenbaum @yokofakun

related: 
http://bionics.it/posts/parsing-drugbank-xml-or-any-large-xml-file-in-streaming-mode-in-go

*/
import ca.drugbank.*;
import java.util.*;
import java.util.stream.*;

samuell

SELECT node.title,timestamp,node_revisions.body 
  FROM node 
  LEFT JOIN node_revisions  ON node.vid=node_revisions.vid
  INTO OUTFILE '/tmp/nodes.csv' 
    FIELDS TERMINATED BY ',' 
    ENCLOSED BY '"' 
    LINES TERMINATED BY '\n';

dergachev

Vagrant Setup

This tutorial guides you through creating your first Vagrant project.

We start with a generic Ubuntu VM, and use the Chef provisioning tool to:

• install packages for vim, git
• create user accounts, as specified in included JSON config files
• install specified user dotfiles (.bashrc, .vimrc, etc) from a git repository

Afterwards, we'll see how easy it is to package our newly provisioned VM

markjay4k

# -*- coding: utf-8 -*-
"""
    Animated 3D sinc function
"""

from pyqtgraph.Qt import QtCore, QtGui
import pyqtgraph.opengl as gl
import pyqtgraph as pg
import numpy as np
import sys