Ejemplo n.º 1
0
int
main(int argc, char **argv)
{
  ESL_GETOPTS    *go   = esl_getopts_CreateDefaultApp(options, 0, argc, argv, banner, usage);
  ESL_RANDOMNESS *r    = esl_randomness_CreateFast(esl_opt_GetInteger(go, "-s"));
  ESL_ALPHABET   *abc  = NULL;
  P7_HMM         *hmm  = NULL;
  P7_PROFILE     *gm   = NULL;
  P7_BG          *bg   = NULL;
  int             M    = 100;
  int             L    = 200;
  int             nseq = 20;
  char            errbuf[eslERRBUFSIZE];

  if ((abc = esl_alphabet_Create(eslAMINO))         == NULL)  esl_fatal("failed to create alphabet");
  if (p7_hmm_Sample(r, M, abc, &hmm)                != eslOK) esl_fatal("failed to sample an HMM");
  if ((bg = p7_bg_Create(abc))                      == NULL)  esl_fatal("failed to create null model");
  if ((gm = p7_profile_Create(hmm->M, abc))         == NULL)  esl_fatal("failed to create profile");
  if (p7_ProfileConfig(hmm, bg, gm, L, p7_LOCAL)    != eslOK) esl_fatal("failed to config profile");
  if (p7_hmm_Validate    (hmm, errbuf, 0.0001)      != eslOK) esl_fatal("whoops, HMM is bad!: %s", errbuf);
  if (p7_profile_Validate(gm,  errbuf, 0.0001)      != eslOK) esl_fatal("whoops, profile is bad!: %s", errbuf);

  utest_forward    (go, r, abc, bg, gm, nseq, L);
  utest_generation (go, r, abc, gm, hmm, bg, nseq);
  utest_enumeration(go, r, abc, 4);	/* can't go much higher than 5; enumeration test is cpu-intensive. */

  p7_profile_Destroy(gm);
  p7_bg_Destroy(bg);
  p7_hmm_Destroy(hmm);
  esl_alphabet_Destroy(abc);
  esl_randomness_Destroy(r);
  esl_getopts_Destroy(go);
  return 0;
}
Ejemplo n.º 2
0
int
main(int argc, char **argv)
{
  ESL_GETOPTS    *go   = p7_CreateDefaultApp(options, 0, argc, argv, banner, usage);
  ESL_RANDOMNESS *rng  = esl_randomness_Create(esl_opt_GetInteger(go, "-s"));
  ESL_ALPHABET   *abc  = esl_alphabet_Create(eslAMINO);
  int             M    = 50;

  fprintf(stderr, "## %s\n", argv[0]);
  fprintf(stderr, "#  rng seed = %" PRIu32 "\n", esl_randomness_GetSeed(rng));

  utest_generation (rng, M, abc, 10);  // test a bunch of seqs to try to make sure we exercise exact domain score recalculation
  utest_singlemulti(rng, M, abc, 10);

  fprintf(stderr, "#  status = ok\n");

  esl_alphabet_Destroy(abc);
  esl_randomness_Destroy(rng);
  esl_getopts_Destroy(go);
  return 0;
}