jts

Slice 1/1, container offset 549, file offset 2589
        Slice content type MAPPED_SLICE
        Slice ref seq    -1
        Slice ref start  1
        Slice ref span   1
        Slice MD5        00000000000000000000000000000000
        Rec counter      0
        No. records      4311
        No. blocks       26
        Blk IDS:         {11, 12, 25, 30, 32, 5779802, 6371138, 6377306, 6384474, 6382182, 6369894, 6376538, 6370921, 6369641, 6381926, 6370409, 6374746, 6370665, 6377050, 6386010, 6371418, 5779546, 6375258, 6370138, 6386778}

jts

#

# Sub directories containing source code, except for the main programs
SUBDIRS := src src/hmm src/thirdparty src/thirdparty/scrappie src/common src/alignment src/pore_model

#
# Set libraries, paths, flags and options
#

#Basic flags every build needs

jts

##fileformat=VCFv4.1
##fileDate=20140620
##reference=hs37d5
##INFO=<ID=CIEND,Number=2,Type=Integer,Description="Confidence interval around END for imprecise variants">
##INFO=<ID=CIPOS,Number=2,Type=Integer,Description="Confidence interval around POS for imprecise variants">
##INFO=<ID=END,Number=1,Type=Integer,Description="End position of the variant described in this record">
##INFO=<ID=IMPRECISE,Number=0,Type=Flag,Description="Imprecise structural variation">
##INFO=<ID=SVLEN,Number=.,Type=Integer,Description="Difference in length between REF and ALT alleles">
##INFO=<ID=SVTYPE,Number=1,Type=String,Description="Type of structural variant">
##ALT=<ID=DEL,Description="Deletion">

jts

a45ff304-451c-4027-83fa-e37ba9c01bc1    133    19    2998502    0    *    =    2998502    0    TGACATCATGCCTGGTGCACACCCACTCTGGTTCTGATACCGCCAGCTTCCAGAAAGGGCAGCACTTCAGTTCCATCTCTCTTGGTATTGAGGGAATGGAG
5437e56c-9c19-4b53-9568-b870629bbbd3    69    19    2998550    0    *    =    2998550    0    GTTCTGATACCGCCAGCTTCCAGAAAGGGCAGCACTTCAGTTCCATCTCTCTTGGTATTGAGGGAATGGAGGCCCTGTTCTGCCCATTGGACTTAGCTCCA
8f570a1f-426c-48e1-afac-a866caa12613    69    19    2998551    0    *    =    2998551    0    CATCATGCCTGGTGCACACCCACTCTGGTTCTGATACCGCCAGCTTCCAGAAAGGGCAGCACTTCAGTTCCATCTCTCTTGGTATTGAGGGAATGGAGGCC
18226cbc-505d-4eef-89a2-48575fd09b5e    133    19    2998698    0    *    =    2998698    0    ACATCATGCCTGGTGCACACCCACTCTGGTTCTGATACCGCCAGCTTCCAGAAAGGGCAGCACTTCAGTTCCATCTCTCTTGGTATTGAGGGAATGGAGGC
19503915-e648-4036-98d1-2701784bc1d3    101    19    2998934    0    *    =    2998934    0    CTGGTGCACACCCACTCTGGTTCTGATACCGCCAGCTTCCAGAAAGGGCAGCACTTCAGTTCCATCTCTCTTGGTATTGAGGGAATGGAGGCCCTGTTCTG
9548554d-cf08-4d29-883b-80d05f48c067    1

jts

#! /usr/bin/perl
#
# Submission wrapper for LSF
# Recognizes parameters for the number
# of cpus to use, the amount of memory to reserve
# and the amount of disk space required.
# 
use strict;
use Getopt::Long;
Getopt::Long::Configure('pass_through');

jts

// Test case: ~600 Mbp of 150bp E. coli sequence reads

//
// SGA FM-index
//

Symbols: 605264456 Bytes: 121737401 (0.20 bytes per symbol)
Calculated 100000000 occurrence values in 21.28 seconds (0.212800 us/call)

//