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123 lines
2.5 KiB
Bash
Executable file
123 lines
2.5 KiB
Bash
Executable file
#!/bin/bash
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# SPDX-FileCopyrightText: 2021-2022 Ole Tange, http://ole.tange.dk and Free Software and Foundation, Inc.
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#
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# SPDX-License-Identifier: GPL-3.0-or-later
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setup() {
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tmp=$(tempfile)
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perl -pe 's/\n/\n\0/' >$tmp <<EOF
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chr1 1 Sample 1
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chr1 11 Sample 1
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chr1 111 Sample 1
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chr1 1111 Sample 1
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chr1 11111 Sample 1
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chr1 111111 Sample 1
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chr2 1 Sample 1
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chr2 22 Sample 1
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chr2 111 Sample 1
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chr2 2222 Sample 1
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chr2 11111 Sample 1
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chr2 111111 Sample 1
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chr10 1 Sample 1
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chr10 11 Sample 1
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chr10 111 Sample 1
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chr10 1111 Sample 1
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chr10 11111 Sample 1
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chr10 111111 Sample 1
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chr1 1 Sample 2
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chr1 11 Sample 2
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chr1 111 Sample 2
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chr1 1111 Sample 2
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chr1 11111 Sample 2
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chr1 111111 Sample 2
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chr2 1 Sample 2
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chr2 22 Sample 2
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chr2 111 Sample 2
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chr2 2222 Sample 2
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chr2 11111 Sample 2
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chr2 111111 Sample 2
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chr10 1 Sample 2
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chr10 11 Sample 2
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chr10 111 Sample 2
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chr10 1111 Sample 2
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chr10 11111 Sample 2
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chr10 111111 Sample 2
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chr1 1 Sample 10
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chr1 11 Sample 10
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chr1 111 Sample 10
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chr1 1111 Sample 10
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chr1 11111 Sample 10
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chr1 111111 Sample 10
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chr2 1 Sample 10
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chr2 22 Sample 10
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chr2 111 Sample 10
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chr2 2222 Sample 10
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chr2 11111 Sample 10
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chr2 111111 Sample 10
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chr10 1 Sample 10
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chr10 11 Sample 10
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chr10 111 Sample 10
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chr10 1111 Sample 10
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chr10 11111 Sample 10
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chr10 111111 Sample 10
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EOF
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export tmp
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}
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parsort_test() {
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echo "### parsort $@"
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parsort "$@" $tmp | md5sum
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sort "$@" $tmp | md5sum
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parsort "$@" < $tmp | md5sum
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sort "$@" < $tmp | md5sum
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}
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export -f parsort_test
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par_normal() { parsort_test; }
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par_n() { parsort_test -n; }
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par_r() { parsort_test -r; }
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par_nr() { parsort_test -nr; }
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par_z() { parsort_test -z; }
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par_k2() { parsort_test -k2n; }
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par_k2r() { parsort_test -k2nr; }
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par_k3() { parsort_test -k3; }
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par_k3r() { parsort_test -k3r; }
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par_dummy() {
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parsort_test --random-source=`which parallel` --batch-size=10 \
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--compress-program=gzip --temporary-directory=/var/tmp \
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--parallel=8 --unique
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# TODO
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# files0=$(tempfile)
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# echo $tmp > $files0
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# --files0-from=$files0
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}
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par_tmpdir() {
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export TMPDIR="/tmp/parsort dir"
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rm -rf "$TMPDIR"
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echo Should fail
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echo Fail: no such dir | parsort
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mkdir "$TMPDIR"
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echo OK | parsort
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chmod -w "$TMPDIR"
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echo Should fail
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echo Fail: writeable | parsort
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rm -rf "$TMPDIR"
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}
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setup
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export -f $(compgen -A function | grep par_)
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compgen -A function | grep par_ | LC_ALL=C sort |
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parallel --timeout 10000% -j6 --tag -k --joblog /tmp/jl-`basename $0` '{} 2>&1'
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