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r1275: renamed --jump-pass1 to --pass1
Also documented 2-pass
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@@ -84,7 +84,7 @@ static ko_longopt_t long_options[] = {
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{ "pairing", ko_required_argument, 359 },
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{ "jump-min-match", ko_required_argument, 360 },
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{ "write-junc", ko_no_argument, 361 },
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{ "jump-pass1", ko_required_argument, 362 },
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{ "pass1", ko_required_argument, 362 },
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{ "dbg-seed-occ", ko_no_argument, 501 },
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{ "help", ko_no_argument, 'h' },
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{ "max-intron-len", ko_required_argument, 'G' },
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