run.sh

   1 #!/bin/sh
   2 # This is the main analyzer script, producing a phylogenetic tree
   3 # from DNA set using given comparator method.
   4 #
   5 # Usage: ./run.sh COMPARATOR OUTTREE.PNG DNAFILE1 DNAFILE2...
   6
   7 cmp="$1"; shift
   8 output="$1"; shift
   9 scratch="/tmp/autophylo-scratch$$"
  10 mkdir "$scratch" || exit 1
  11
  12 for file; do
  13         basename "$file" | sed 's/\.[^.]*$//'
  14 done >"$scratch/dna-list"
  15
  16 for file; do echo "$file"; done |
  17         ./matrix_gen.sh "$cmp" "$scratch" |
  18         tee "$scratch/matrix" |
  19         ./matrix_to_tree.sh |
  20         ./tree_render.sh "$scratch/dna-list" |
  21         cat >"$output"