john2x

Clojure Destructuring Tutorial and Cheat Sheet

(Related blog post)

Simply put, destructuring in Clojure is a way extract values from a datastructure and bind them to symbols, without having to explicitly traverse the datstructure. It allows for elegant and concise Clojure code.

Vectors and Sequences

c0ldlimit

# http://flask.pocoo.org/snippets/88/

import os, sqlite3
from cPickle import loads, dumps
from time import sleep
try:
    from thread import get_ident
except ImportError:
    from dummy_thread import get_ident

meatcar

What is Avro?

Parsing the ga4gh API requires you first to understand what is Avro.

Avro is a project that allows you to

• formaly declare and define data structures (schemas in Avro) to be later used in different languages.
• store data in a file
• fetch data from a file

shiva

include(CMakeParseArguments)

find_program(NIM_EXECUTABLE nimrod PATHS ENV PATH)
mark_as_advanced(NIM_EXECUTABLE)

# Determine the valac version
if(NIM_EXECUTABLE)
    execute_process(COMMAND ${NIM_EXECUTABLE} "--version" 
        OUTPUT_VARIABLE NIM_VERSION

shortsightedsid

; Short guide to TCP/IP Client/Server programming in Common Lisp using usockets
;
; The main reason for this guide is because there are very few examples that
; explain how to get started with socket programming with Common Lisp that I
; could understand. After spending a day trying, I finally came up with a small
; bit of code that makes it easy to understand the basics. I've written this
; primarily for myself, but should help others get started as well.

; As usual, we will use quicklisp to load usocket.

shortsightedsid

; Short guide to UDP/IP Client/Server programming in Common Lisp using usockets
;
; The main reason for this guide is because there are very few examples that
; explain how to get started with socket programming with Common Lisp that I
; could understand. 
; After working on a short example on TCP, I found the
; need for a UDP tutorial. So, here goes.

; As usual, we will use quicklisp to load usocket.

cszentkiralyi

Prereqs

These are for the combined vim-sexp (https://github.com/guns/vim-sexp) and vim-sexp-mappings-for-regular-people (https://github.com/tpope/vim-sexp-mappings-for-regular-people) plugins. vim-sexp is neat on its own but Tim Pope makes common stuff much easier.

Note that some vim-sexp functionality depends on <LocalLeader> mappings. This is a different leader key than the global leader, and is the variable maplocalleader (instead of mapleader). To see if you have this set, use :echo maplocalleader; if it errors out you'll need to set it, otherwise it will echo the key. If you want to set your LocalLeader to <Space>, you'll need two commands in your .vimrc, since by default <Space> is bound to <Right> in normal mode:

nnoremap <Space> <Nop>
let maplocalleader=" "

TOC

lindenb

.PHONY:all
all: avro-tools-1.7.7.jar schemas-0.5.1/src/main/resources/avro/variants.avpr src/test/TestAvro.java
	rm -rf generated
	mkdir -p generated
	#generate java classes
	java -jar $< compile protocol schemas-0.5.1/src/main/resources/avro/ ./generated
	#compile classes
	javac -d generated -cp avro-tools-1.7.7.jar -sourcepath generated:src generated/org/ga4gh/*.java src/test/TestAvro.java
	# archive
	jar cvf generated/ga4gh.jar -C generated org -C generated test

MarioAriasC

package org.cakesolutions.spark

import org.apache.spark.SparkConf
import org.apache.spark.api.java.JavaSparkContext
import scala.Tuple2


fun main(args: Array<String>) {
    val inputFile = args[0]
    val outputFile = args[1]

lindenb

HTSJDK=path/to/htsjdk-2.0.1.jar:path/to/apache-ant-1.8.2-bzip2.jar:path/to/commons-compress-1.4.1.jar:path/to/commons-jexl-2.1.1.jar:path/to/commons-logging-1.1.1.jar:path/to/ngs-java-1.2.2.jar:path/to/snappy-java-1.0.3-rc3.jar:path/to/xz-1.5.jar
all:
	rm -rf tmp
	mkdir -p tmp
	javac -d tmp -cp ${HTSJDK}:.   Test.java
	java -cp ${HTSJDK}:tmp Test path/to/dbsnp_138.b37.vcf