Richard Campen campenr

This depends on biom version >= 2.1.5, < 2.2.0 and vsearch >= 1.7.0.

Please note that all of this is highly experimental. I'm keeping these notes as I work with this approach. For published work, I still recommend using standard pipelines, such as those in QIIME 1.9.1.

$ biom --version
biom, version 2.1.5

$ vsearch --version
vsearch v1.7.0_osx_x86_64, 16.0GB RAM, 8 cores

To remove a submodule you need to:

Delete the relevant section from the .gitmodules file.
Stage the .gitmodules changes git add .gitmodules
Delete the relevant section from .git/config.
Run git rm --cached path_to_submodule (no trailing slash).
Run rm -rf .git/modules/path_to_submodule (no trailing slash).
Commit git commit -m "Removed submodule "
Delete the now untracked submodule files rm -rf path_to_submodule

	#!/bin/bash
	# Stop all containers
	containers=`docker ps -a -q`
	if [ -n "$containers" ] ; then
	docker stop $containers
	fi
	# Delete all containers
	containers=`docker ps -a -q`
	if [ -n "$containers" ]; then
	docker rm -f -v $containers

	# Hello, and welcome to makefile basics.
	#
	# You will learn why `make` is so great, and why, despite its "weird" syntax,
	# it is actually a highly expressive, efficient, and powerful way to build
	# programs.
	#
	# Once you're done here, go to
	# http://www.gnu.org/software/make/manual/make.html
	# to learn SOOOO much more.

	#!/usr/bin/env python
	import os
	import shlex
	import struct
	import platform
	import subprocess


	def get_terminal_size():
	""" getTerminalSize()