#!/bin/sh

############################################################################
# Copyright (c) 2015 Saint Petersburg State University
# Copyright (c) 2011-2014 Saint Petersburg Academic University
# All Rights Reserved
# See file LICENSE for details.
############################################################################


RUNNER_PARAM_SOAP_BASE/SOAPdenovo-127mer all -K RUNNER_PARAM_K -F -R -E -w -u -s RUNNER_PARAM_SOAP_CONFIG -o asm -p RUNNER_PARAM_THREADS
RUNNER_PARAM_SOAP_BASE/GapCloser -b RUNNER_PARAM_SOAP_CONFIG -a asm.scafSeq -o asm.new.scafSeq -t RUNNER_PARAM_THREADS