alexpreynolds

>seq0
FQTWEEFSRAAEKLYLADPMKVRVVLKYRHVDGNLCIKVTDDLVCLVYRTDQAQDVKKIEKF
>seq1
KYRTWEEFTRAAEKLYQADPMKVRVVLKYRHCDGNLCIKVTDDVVCLLYRTDQAQDVKKIEKFHSQLMRLME
LKVTDNKECLKFKTDQAQEAKKMEKLNNIFFTLM
>seq2
EEYQTWEEFARAAEKLYLTDPMKVRVVLKYRHCDGNLCMKVTDDAVCLQYKTDQAQDVKKVEKLHGK
>seq3
MYQVWEEFSRAVEKLYLTDPMKVRVVLKYRHCDGNLCIKVTDNSVCLQYKTDQAQDVK
>seq4

alexpreynolds

#!/usr/bin/env perl

use strict;
use warnings;
use List::Util qw(shuffle);
use Fcntl qw(SEEK_CUR);

my $inFn = "example.fa";
my $n = 5;

alexpreynolds

#!/usr/bin/perl -w

use strict;
use Getopt::Long;
use Data::Dumper;
use EulerSet;

#
# sample input:
#

alexpreynolds

A	B	C
0	1	0
0	1	0
0	1	0
0	1	0
0	0	1
0	1	1
0	1	1
0	1	1
0	1	0

alexpreynolds

#!/usr/bin/perl 

package EulerSet;

sub new {
	my $class = shift;
	my $self = {
		_subsetRef => shift,
		_indicator => shift,
		_length => shift,

alexpreynolds

#include <stdio.h>
#include <stdlib.h>
#include <string.h>

#define MAX_LETTERS 5

int main(int argc, char *argv[])
{
    const char *source = "candle";
    char *destination = NULL;

alexpreynolds

[areynolds@fiddlehead src]$ pwd
/home/areynolds/proj/sjn/25Feb2015/src

[areynolds@fiddlehead src]$ ./merge-all-dhs.parallel.debug.tcsh
set hotdir = ../data/hotspots
find -L ../data/hotspots/ -maxdepth 2 -mindepth 2 -type f -name *.gz -print0
parallel -0 -X -m zcat {}
valgrind --tool=massif --pages-as-heap=yes --peak-inaccuracy=0.1 /home/sjn/Github/BEDOPS/bedops/applications/b\
ed/sort-bed/bin/debug.sort-bed --max-mem 1G -
==30303== Massif, a heap profiler

alexpreynolds

#include <sys/stat.h>
#include <stdlib.h>
#include <stdio.h>

int main(int argc, char **argv)
{
    struct stat st;
    
    if (stat(argv[1], &st) == -1) {
        fprintf(stderr, "Error: stat() failed\n");

alexpreynolds

#!/usr/bin/perl

use strict;
use warnings;
use Data::Dumper;
use File::Basename;
use File::Path;
use File::Copy;
use Getopt::Long;
use IO::File;

alexpreynolds

package org.stamlab.test;

public class EqualTestClass {
    private final static double kEpsilon = 1e-12;

    public static boolean isEqual(double a, double b) {
        return Math.abs(a - b) < kEpsilon;
    }

    public static void main(String[] args) {