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        / /_/  >  | \// __ \|  |  / /_/ | |  ||  |  
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              grep rough audit - static analysis tool
                  v2.8 written by @Wireghoul
=================================[justanotherhacker.com]===
minimap2-2.17+dfsg/README.md-21-./minimap2 -ax splice:hq -uf ref.fa query.fa > aln.sam    # Final PacBio Iso-seq or traditional cDNA
minimap2-2.17+dfsg/README.md:22:./minimap2 -cx asm5 asm1.fa asm2.fa > aln.paf             # intra-species asm-to-asm alignment
minimap2-2.17+dfsg/README.md-23-./minimap2 -x ava-pb reads.fa reads.fa > overlaps.paf     # PacBio read overlap
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minimap2-2.17+dfsg/cookbook.md-217-minimap2 -x ava-ont -r 10000 ecoli_p6_25x_canu.fa ecoli_p6_25x_canu.fa > overlap.paf
minimap2-2.17+dfsg/cookbook.md:218:# If you have miniasm installed:
minimap2-2.17+dfsg/cookbook.md:219:miniasm -f ecoli_p6_25x_canu.fa overlap.paf > asm.gfa
minimap2-2.17+dfsg/cookbook.md-220-```
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minimap2-2.17+dfsg/misc/README.md-44-It is highly recommended to copy the executable `k8` to a directory on your
minimap2-2.17+dfsg/misc/README.md:45:`$PATH` such as `/usr/bin/env` can find it. Like python scripts, once you
minimap2-2.17+dfsg/misc/README.md-46-install `k8`, you can launch paftools.js in one of the two ways:
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minimap2-2.17+dfsg/misc/paftools.js-667-
minimap2-2.17+dfsg/misc/paftools.js:668:	var n_asm = args.length - (getopt.ind + 1);
minimap2-2.17+dfsg/misc/paftools.js-669-	var header = ["Metric"];
##############################################
minimap2-2.17+dfsg/debian/createmanpages-4-
minimap2-2.17+dfsg/debian/createmanpages:5:VERSION=`dpkg-parsechangelog | awk '/^Version:/ {print $2}' | sed -e 's/^[0-9]*://' -e 's/-.*//' -e 's/[+~]dfsg$//'`
minimap2-2.17+dfsg/debian/createmanpages-6-NAME=`grep "^Description:" debian/control | sed 's/^Description: *//' | head -n1`
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minimap2-2.17+dfsg/debian/test_script-16-# minimap2 -ax splice -uf -C5 ref.fa query.fa > aln.sam   # Final PacBio Iso-seq or traditional cDNA
minimap2-2.17+dfsg/debian/test_script:17:# minimap2 -cx asm5 asm1.fa asm2.fa > aln.paf             # intra-species asm-to-asm alignment
minimap2-2.17+dfsg/debian/test_script-18-# minimap2 -x ava-pb reads.fa reads.fa > overlaps.paf     # PacBio read overlap
##############################################
minimap2-2.17+dfsg/debian/tests/run-unit-test-6-if [ "$AUTOPKGTEST_TMP" = "" ] ; then
minimap2-2.17+dfsg/debian/tests/run-unit-test:7:  AUTOPKGTEST_TMP=`mktemp -d /tmp/${pkg}-test.XXXXXX`
minimap2-2.17+dfsg/debian/tests/run-unit-test-8-  trap "rm -rf $AUTOPKGTEST_TMP" 0 INT QUIT ABRT PIPE TERM