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// 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) | |
// |
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#! /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'); |
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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 |
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##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"> |
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# | |
# 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 |
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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} |