sources/readseq/Make.com

   1 $!
   2 $!VAX-VMS cc make file for readseq
   3 $!
   4 $ echo := write sys$output
   5 $ if p1.eqs."TEST" then goto tests
   6 $
   7 $ echo "compiling readseq..."
   8 $ cc readseq, ureadseq
   9 $!
  10 $ echo "linking readseq..."
  11 $ link readseq, ureadseq, sys$library:vaxcrtl/lib
  12 $!
  13 $tests:
  14 $!
  15 $ echo "defining readseq symbol:"
  16 $ dd = f$environment("default")
  17 $ readseq :== $ 'dd'readseq.exe
  18 $ show symbol readseq
  19 $!
  20 $ echo ""
  21 $ echo "test for general read/write of all chars:"
  22 $ readseq -p alphabet.std -otest.alpha
  23 $ diff test.alpha alphabet.std
  24 $!
  25 $ echo ""
  26 $ echo "test for valid format conversions"
  27 $!
  28 $ readseq -v -p -f=ig   nucleic.std -otest.ig
  29 $ readseq -v -p -f=gb   test.ig     -otest.gb
  30 $ readseq -v -p -f=nbrf test.gb     -otest.nbrf
  31 $ readseq -v -p -f=embl test.nbrf   -otest.embl
  32 $ readseq -v -p -f=gcg  test.embl   -otest.gcg
  33 $ readseq -v -p -f=strider test.gcg -otest.strider
  34 $ readseq -v -p -f=fitch test.strider -otest.fitch
  35 $ readseq -v -p -f=fasta test.fitch -otest.fasta
  36 $ readseq -v -p -f=pir  test.fasta  -otest.pir
  37 $ readseq -v -p -f=ig   test.pir    -otest.ig-b
  38 $ diff test.ig test.ig-b
  39 $!
  40 $ echo ""
  41 $ echo "Test for multiple-sequence format conversions:"
  42 $ readseq -p -f=ig    multi.std   -otest.m-ig
  43 $ readseq -p -f=gb    test.m-ig   -otest.m-gb
  44 $ readseq -p -f=nbrf  test.m-gb   -otest.m-nbrf
  45 $ readseq -p -f=embl  test.m-nbrf -otest.m-embl
  46 $ readseq -p -f=fasta test.m-embl -otest.m-fasta
  47 $ readseq -p -f=pir   test.m-fasta -otest.m-pir
  48 $ readseq -p -f=msf   test.m-pir  -otest.m-msf
  49 $ readseq -p -f=paup  test.m-msf  -otest.m-paup
  50 $ readseq -p -f=ig    test.m-paup -otest.m-ig-b
  51 $ diff test.m-ig test.m-ig-b
  52 $ echo ""
  53 $ echo "Expect differences in the header lines due to"
  54 $ echo "different format headers.  If any sequence lines"
  55 $ echo "differ, or if checksums differ, there is a problem."
  56 $!
  57 $! #cleanup
  58 $! delete test.*;
  59 $ echo "-----------"
  60 $ echo ""
  61 $ echo "To clean up test files, command me:
  62 $ echo "  DELETE test.*;"
  63 $!