/usr/bin/generate_test_clusters is in dnaclust 3-2.
This file is owned by root:root, with mode 0o755.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 | #!/bin/bash
for test_name in small_test.fna test_600k.fna ; do
for threads in 1 2 3 4 ; do
#run_cmd="${cmd} --no-k-mer-filter "
eval time ./dnaclust --no-k-mer-filter -t ${threads} ../dnaclust/${test_name} > results/${test_name}.nk.${threads}.clusters
awk '{print NF}' results/${test_name}.nk.${threads}.clusters > results/${test_name}.nk.${threads}.counts
eval time ./dnaclust -t ${threads} ../dnaclust/${test_name} > results/${test_name}.k.${threads}.clusters
awk '{print NF}' results/${test_name}.k.${threads}.clusters > results/${test_name}.k.${threads}.counts
done
done
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