lomereiter

import std.stdio;

import core.runtime;
extern(C) void lib_init() {
    Runtime.initialize();
}

import std.conv;
import std.string;
import core.memory;

lomereiter

/tmp/ccqX2hrB.o: In function `_D19randomaccessmanager19RandomAccessManager13getAlignmentsMFmiiZS19randomaccessmanager19RandomAccessManager13getAlignmentsM87__T6filterS7319randomaccessmanager19RandomAccessManager13getAlignmentsM13__dgliteral14Z440__T6filterTS19randomaccessmanager19RandomAccessManager13getAlignmentsM360__T5UntilS7319randomaccessmanager19RandomAccessManager13getAlignmentsM13__dgliteral16TS19randomaccessmanager19RandomAccessManager188__T27disjointChunkAlignmentRangeTS3bai5utils4algo106__T20nonOverlappingChunksTS3std5range53__T11SortedRangeTAS3bai5chunk5ChunkVAyaa5_61203c2062Z11SortedRangeZ20nonOverlappingChunks6ResultZ27disjointChunkAlignmentRangeM6ResultTvZ5UntilZ6filterMFS19randomaccessmanager19RandomAccessManager13getAlignmentsM360__T5UntilS7319randomaccessmanager19RandomAccessManager13getAlignmentsM13__dgliteral16TS19randomaccessmanager19RandomAccessManager188__T27disjointChunkAlignmentRangeTS3bai5utils4algo106__T20nonOverlappingChunksTS3std5range53__T11SortedRangeTAS3bai5chunk5ChunkVAyaa5_61

lomereiter

struct Section {
    
    this(QTabFile file, string tag) {
        ...
    }
    
    /// Allows to iterate over section lines with foreach.
    int opApply(int delegate(string) call_line) {
        ...
    }

lomereiter

#!/usr/bin/env bash

mkdir -p gdc47/dev
git clone --branch gdc-4.7 https://github.com/D-Programming-GDC/GDC.git gdc47/dev

cd gdc47
mkdir downloads
cd downloads
wget ftp://ftp.nluug.nl/mirror/languages/gcc/releases/gcc-4.7.1/gcc-4.7.1.tar.bz2
wget ftp://ftp.nluug.nl/mirror/languages/gcc/infrastructure/mpc-0.8.1.tar.gz

lomereiter

// How to build: 
// rdmd -O -release -inline --build-only -Ipath/to/latest/sambamba/ snpcaller.d
//
// Usage: ./snpcaller input.bam > snps.dat
// (input.bam must contain MD tags)

import bamfile;
import reconstruct;
import splitter;

lomereiter

require 'benchmark'

require 'zlib'
require 'msgpack'

Genotype = Struct.new :location, :ref, :alleles, :prob
class Genotype
  def to_msgpack(buf='')
    [location, ref, alleles, prob].to_msgpack(buf)
  end

lomereiter

jb.statistic <- function(x) {
    x.mean <- mean(x)
    deltas <- x - x.mean
    len <- length(x)

    cm2 <- sum(deltas ** 2) / len 
    cm3 <- sum(deltas ** 3) / len 
    cm4 <- sum(deltas ** 4) / len 

    skew <- cm3 / cm2 ** 1.5 

lomereiter

...
movl  $239, %edi
movq	%r14, %rsi
movl	$1, %edx
callq	_arrayExpSliceAddass_k

...

LBB0_14:
    xorl	%eax, %eax

lomereiter

extern mod gmp;
extern mod std;

use std::getopts::*;
use gmp::Mpz;
use num::Num::from_int;
use std::time::precise_time_s;

fn factorial(n: uint) -> Mpz
{

lomereiter

unittest {
import std.conv;
import bio.gff3.reader;
import bio.gtf.reader;
import bio.gff3.writer;
import bio.gff3.validator;
  
void main() {
  // Keeps all comments and pragmas -- this is cheap.
  // If user doesn't need them -- std.algorithm.filter to the rescue!