20261002

2026-10-02 03:32:03 +08:00
parent e398109a10
commit 06954e0e49
21 changed files with 4336 additions and 8560 deletions
@@ -0,0 +1,20 @@
+#! /bin/bash
+set -e
+
+dirname=$(dirname "$0")
+if [ "$#" -ne 2 ]; then
+    echo "Usage: $0 <input_fasta> <output_nexus>"
+    exit 1
+fi
+
+in_fasta=$(readlink -f "$1")
+out_nex=$2
+
+# Convert fasta to nexus
+out_dir=$(dirname "$out_nex")
+mkdir -p "$out_dir"
+seqmagick convert --output-format nexus --alphabet dna --input-format fasta "$in_fasta" "$out_nex"
+# append MrBayes block to nexus file
+cat "$dirname/mbblock.txt" >>"$out_nex"
+# Run MrBayes
+mb "$out_nex" >"${out_dir}"/mrbayes.log 2>&1