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Small bugfix for paftools.js 

The bug resulted in the wrong coverage being printed in some cases.
This commit is contained in:
apregier 2018-04-04 14:19:16 -05:00 committed by Heng Li
parent ee4cd089f7
commit 2e2e69107c
1 changed files with 2 additions and 2 deletions
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4
misc/paftools.js
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@ -484,7 +484,7 @@ function paf_call(args)
// drop alignments that don't overlap with the current one // drop alignments that don't overlap with the current one
var k = 0; var k = 0;
for (var i = 0; i < a.length; ++i) for (var i = 0; i < a.length; ++i)
if (a[0][0] == ctg && a[0][2] > x) if (a[i][0] == ctg && a[i][2] > x)
a[k++] = a[i]; a[k++] = a[i];
a.length = k; a.length = k;
// core loop // core loop
@ -496,7 +496,7 @@ function paf_call(args)
var cov = 1; var cov = 1;
if (m[1] == '*' || m[1] == '+' || m[1] == '-') if (m[1] == '*' || m[1] == '+' || m[1] == '-')
for (var i = 0; i < a.length; ++i) for (var i = 0; i < a.length; ++i)
if (a[0][2] > x) ++cov; if (a[i][2] > x) ++cov;
var qs, qe; var qs, qe;
if (m[1] == '=' || m[1] == ':') { if (m[1] == '=' || m[1] == ':') {
var l = m[1] == '='? m[2].length : parseInt(m[2]); var l = m[1] == '='? m[2].length : parseInt(m[2]);