12 lines
381 B
Bash
Executable File
12 lines
381 B
Bash
Executable File
#! /usr/bin/env bash
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mkdir -p treeshrink
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for i in trimed_nal/*.trimed.fa; do
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j=$(basename "$i")
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mkdir -p treeshrink/"${j/.trimed.fa/}"
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cd treeshrink/"${j/.trimed.fa/}" || exit 1
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ln -s ../../fasttree/"${j/.trimed.fa/.tree}" input.tree
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ln -s ../../"$i" input.fasta
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cd ../../
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done
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run_treeshrink.py -i treeshrink/ -t input.tree -a input.fasta > treeshrink.log
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