icaoberg

# icaoberg - this example is fork that uses a bedtools in a Singularity container
CONTAINER=../../singularity-bedtools.simg

echo "chr1	10	50	10" > a.bed
echo "chr1	20	40	20" > b.bed
echo "chr1	30	33	30" > c.bed

# Find the sub-intervals shared and unique to each file.
if [ -f $CONTAINER ]; then
	singularity run --app bedtools $CONTAINER multiinter -i a.bed b.bed c.bed | column -t

icaoberg

#!/bin/bash

shopt -s nullglob

FILE=$1

if [ -f $FILE ]; then
     mv -v "$FILE" $(uuidgen).${FILE##*.}
fi

icaoberg

#!/bin/bash

find . -name "*.pyc" -exec git rm {} \;
git commit -m "Removed compiled python files in distribution left after last commit"

icaoberg

!/bin/bash

# icaoberg yes, i know there are better cleaner ways...

task project:$1 list | grep tasks | cut -d" " -f 1 | sed '/^[[:space:]]*$/d' | awk '{$1=$1;print}'

icaoberg

Bootstrap: docker
From: ubuntu:16.04

IncludeCmd: yes

%labels
  Maintainer icaoberg AT alumni DOT cmu DOT edu
  Version v1.0

%runscript

icaoberg

#!/bin/bash

for F in *.webp
do
  dwebp $F -o $F.png
done

icaoberg

#!/bin/python3

import math
import os
import random
import re
import sys

# Complete the rotLeft function below.
def rotLeft(a, d):

icaoberg

#!/bin/bash

# Copyright (C) 2018-2019 Ivan Cao-Berg
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published
# by the Free Software Foundation; either version 2 of the License,
# or (at your option) any later version.
#
# This program is distributed in the hope that it will be useful, but

icaoberg

# Author: Michelle Mackie
#
# Copyright (C) Summer 2012
# School of Computer Science
# Carnegie Mellon University
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published
# by the Free Software Foundation; either version 2 of the License,
# or (at your option) any later version.

icaoberg

#!/bin/bash
#
#$ -j y
#$ -S /bin/bash
#$ -cwd

## the next line selects the partition/queue
#SBATCH -p short1

## the next line selects the number of nodes