// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/tools/gt_seqcorrect.c
// Function: gt_seqcorrect_option_parser_new
static GtOptionParser* gt_seqcorrect_option_parser_new(void *tool_arguments)
{
  GtSeqcorrectArguments *arguments = tool_arguments;
  GtOptionParser *op;
  GtOption *option, *optionparts, *optionmemlimit, *q_option, *v_option,
           *db_option, *maxlow_option;

  gt_assert(arguments);

  /* init */
  op = gt_option_parser_new("(-ii <indexname>|-db <filenames>) "
      "-k <kmersize> [option ...]", "K-mer based sequence correction.");

  /* -db */
  db_option = gt_option_new_filename_array("db",
      GT_READS2TWOBIT_LIBSPEC_HELPMSG, arguments->db);
  gt_option_hide_default(db_option);
  gt_option_parser_add_option(op, db_option);

  /* -indexname */
  option = gt_option_new_string("indexname", "specify the indexname to use "
      "for the input\ndefault: first argument of the -db option",
      arguments->indexname, NULL);
  gt_option_hide_default(option);
  gt_option_parser_add_option(op, option);

  /* -ii */
  option = gt_option_new_string("ii", "specify the input enseq index",
                                arguments->encseqinput, NULL);
  gt_option_is_mandatory_either(option, db_option);
  gt_option_exclude(option, db_option);
  gt_option_parser_add_option(op, option);

  /* -k */
  option = gt_option_new_uint_min("k", "specify the kmer size for the "
      "correction algorithm", &arguments->correction_kmersize, 31U, 2U);
  gt_option_parser_add_option(op, option);
  gt_option_is_mandatory(option);

  /* -c */
  option = gt_option_new_uint_min("c", "specify the trusted count threshold",
      &arguments->trusted_count, 3U, 2U);
  gt_option_parser_add_option(op, option);

  /* -find-seldom */
  option = gt_option_new_bool("find-seldom", "do not try to correct, only "
      "prepare a list of all reads containing seldom k-mers",
      &arguments->find_seldom, false);
  gt_option_parser_add_option(op, option);

  /* -iter */
  option = gt_option_new_uint_min("iter", "specify the number of iterations",
      &arguments->iterations, 1U, 1U);
  gt_option_parser_add_option(op, option);

  /* -sf */
  option = gt_option_new_uint_min("sf", "specify the sampling factor",
                                  &arguments->samplingfactor, 50U, 1U);
  gt_option_parser_add_option(op, option);
  gt_option_is_development_option(option);

  /* -parts */
  optionparts = gt_option_new_uint("parts", "specify the number of parts",
                                  &arguments->numofparts, 0U);
  gt_option_parser_add_option(op, optionparts);

  /* -memlimit */
  optionmemlimit = gt_option_new_string("memlimit",
                       "specify maximal amount of memory to be used during "
                       "index construction (in bytes, the keywords 'MB' "
                       "and 'GB' are allowed)",
                       arguments->memlimitarg, NULL);
  gt_option_parser_add_option(op, optionmemlimit);
  gt_option_exclude(optionmemlimit, optionparts);
  arguments->refoptionmemlimit = gt_option_ref(optionmemlimit);

  /* -forcek */
  option = gt_option_new_uint("forcek", "specify the kmersize for the bucket "
      "keys", &arguments->forcek, 0);
  gt_option_is_development_option(option);
  gt_option_parser_add_option(op, option);

  /* -usefirstcodes */
  option = gt_option_new_bool("usefirstcodes", "use first codes instead of "
      "random sampled codes", &arguments->usefirstcodes, false);
  gt_option_parser_add_option(op, option);
  gt_option_is_development_option(option);

  /* -v */
  v_option = gt_option_new_verbose(&arguments->verbose);
  gt_option_parser_add_option(op, v_option);

  /* -q */
  q_option = gt_option_new_bool("q",
      "suppress standard output messages",
      &arguments->quiet, false);
  gt_option_exclude(q_option, v_option);
  gt_option_parser_add_option(op, q_option);

  /* -maxlow */
  maxlow_option = gt_option_new_uword("maxlow",
      "maximal number of low-quality positions in a read\n"
      "default: infinite",
      &arguments->maxlow, GT_UNDEF_UWORD);
  gt_option_hide_default(maxlow_option);
  gt_option_is_extended_option(maxlow_option);
  gt_option_parser_add_option(op, maxlow_option);

  /* -lowqual */
  option = gt_option_new_uint_max("lowqual",
      "maximal quality for a position to be considered low-quality",
      &arguments->lowqual, 3U, 127U);
  gt_option_is_extended_option(option);
  gt_option_imply(option, maxlow_option);
  gt_option_parser_add_option(op, option);

  /* -phred64 */
  option = gt_option_new_bool("phred64", "use phred64 scores for FastQ format",
      &arguments->phred64, false);
  gt_option_is_extended_option(option);
  gt_option_parser_add_option(op, option);

  /* -usemaxdepth */
  option = gt_option_new_bool("usemaxdepth", "use maxdepth in sortremaining",
                             &arguments->usemaxdepth, true);
  gt_option_parser_add_option(op, option);
  gt_option_is_development_option(option);

  /* -checksuftab */
  option = gt_option_new_bool("checksuftab", "check the suffix table",
                             &arguments->checksuftab, false);
  gt_option_parser_add_option(op, option);
  gt_option_is_development_option(option);

  /* -onlyaccum */
  option = gt_option_new_bool("onlyaccum", "only accumulate codes",
                             &arguments->onlyaccum, false);
  gt_option_parser_add_option(op, option);
  gt_option_is_development_option(option);

  /* -onlyallrandomcodes */
  option = gt_option_new_bool("onlyallrandomcodes", "only determines allcodes",
                              &arguments->onlyallrandomcodes, false);
  gt_option_parser_add_option(op, option);
  gt_option_is_development_option(option);

  /* -addbscachedepth */
  option = gt_option_new_uint("addbscachedepth", "only determines allcodes",
                              &arguments->addbscache_depth, 5U);
  gt_option_parser_add_option(op, option);
  gt_option_is_development_option(option);

  /* -radixlarge */
  option = gt_option_new_bool("radixlarge", "use large tables for radixsort",
                              &arguments->radixlarge, false);
  gt_option_parser_add_option(op, option);
  gt_option_is_development_option(option);

  /* -radixparts */
  option = gt_option_new_uint("radixparts", "specify the number of parts "
                              "for radixsort",
                              &arguments->radixparts, 1U);
  gt_option_parser_add_option(op, option);
  gt_option_is_development_option(option);

  gt_option_parser_set_max_args(op, 0);

  return op;
}

// Assembly:
subq $0x58, %rsp
movq %rdi, 0x50(%rsp)
movq 0x50(%rsp), %rax
movq %rax, 0x48(%rsp)
cmpq $0x0, 0x48(%rsp)
jne 0x62063
movq 0x5d9f6e(%rip), %rax    # 0x63bfa0
movq (%rax), %rdi
leaq 0x4b3fd7(%rip), %rsi    # 0x516013
leaq 0x518b1c(%rip), %rdx    # 0x57ab5f
leaq 0x4c6ec3(%rip), %rcx    # 0x528f0d
leaq 0x4c6ea2(%rip), %r8     # 0x528ef3
movl $0x6e, %r9d
movb $0x0, %al
callq 0x199f0
callq 0x19370
jmp 0x62065
leaq 0x4c6ec1(%rip), %rdi    # 0x528f2d
leaq 0x4c6ef7(%rip), %rsi    # 0x528f6a
callq 0xf1420
movq %rax, 0x40(%rsp)
movq 0x48(%rsp), %rax
movq 0x58(%rax), %rdx
leaq 0x4e56b4(%rip), %rdi    # 0x547741
leaq 0x4c33ed(%rip), %rsi    # 0x525481
callq 0xf6b00
movq %rax, 0x10(%rsp)
movq 0x10(%rsp), %rdi
callq 0xf7400
movq 0x40(%rsp), %rdi
movq 0x10(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rax
movq 0x48(%rax), %rdx
leaq 0x4d4d18(%rip), %rdi    # 0x536ddf
leaq 0x4c6ebd(%rip), %rsi    # 0x528f8b
xorl %eax, %eax
movl %eax, %ecx
callq 0xf69f0
movq %rax, 0x38(%rsp)
movq 0x38(%rsp), %rdi
callq 0xf7400
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rax
movq 0x38(%rax), %rdx
leaq 0x5241c8(%rip), %rdi    # 0x5862cd
leaq 0x4c6ed4(%rip), %rsi    # 0x528fe0
xorl %eax, %eax
movl %eax, %ecx
callq 0xf69f0
movq %rax, 0x38(%rsp)
movq 0x38(%rsp), %rdi
movq 0x10(%rsp), %rsi
callq 0xf6cf0
movq 0x38(%rsp), %rdi
movq 0x10(%rsp), %rsi
callq 0xf7320
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rdx
addq $0xc, %rdx
leaq 0x4b9922(%rip), %rdi    # 0x51ba79
leaq 0x4c6ea0(%rip), %rsi    # 0x528ffe
movl $0x1f, %ecx
movl $0x2, %r8d
callq 0xf6510
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x38(%rsp), %rdi
callq 0xf6ca0
movq 0x48(%rsp), %rdx
addq $0x14, %rdx
leaq 0x53541c(%rip), %rdi    # 0x5975b8
leaq 0x4c6e8e(%rip), %rsi    # 0x529031
movl $0x3, %ecx
movl $0x2, %r8d
callq 0xf6510
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rdx
addq $0x8, %rdx
leaq 0x4c6e7e(%rip), %rdi    # 0x529055
leaq 0x4c6e83(%rip), %rsi    # 0x529061
xorl %ecx, %ecx
callq 0xf5f20
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rdx
addq $0x28, %rdx
leaq 0x4f2fc6(%rip), %rdi    # 0x5551cf
leaq 0x4c6ea2(%rip), %rsi    # 0x5290b2
movl $0x1, %r8d
movl %r8d, %ecx
callq 0xf6510
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rdx
addq $0x10, %rdx
leaq 0x4f7a1a(%rip), %rdi    # 0x559c5c
leaq 0x4c6e8a(%rip), %rsi    # 0x5290d3
movl $0x32, %ecx
movl $0x1, %r8d
callq 0xf6510
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x38(%rsp), %rdi
callq 0xf7040
movq 0x48(%rsp), %rdx
addq $0x18, %rdx
leaq 0x4c5838(%rip), %rdi    # 0x527abf
leaq 0x4b94d0(%rip), %rsi    # 0x51b75e
xorl %ecx, %ecx
callq 0xf64b0
movq %rax, 0x30(%rsp)
movq 0x40(%rsp), %rdi
movq 0x30(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rax
movq 0x40(%rax), %rdx
leaq 0x5581cf(%rip), %rdi    # 0x5ba488
leaq 0x4b94ba(%rip), %rsi    # 0x51b77a
xorl %eax, %eax
movl %eax, %ecx
callq 0xf69f0
movq %rax, 0x28(%rsp)
movq 0x40(%rsp), %rdi
movq 0x28(%rsp), %rsi
callq 0xf1600
movq 0x28(%rsp), %rdi
movq 0x30(%rsp), %rsi
callq 0xf7320
movq 0x28(%rsp), %rdi
callq 0xf13c0
movq %rax, %rcx
movq 0x48(%rsp), %rax
movq %rcx, 0x50(%rax)
movq 0x48(%rsp), %rdx
addq $0x24, %rdx
leaq 0x4b974b(%rip), %rdi    # 0x51ba5d
leaq 0x4c6dd6(%rip), %rsi    # 0x5290ef
xorl %ecx, %ecx
callq 0xf64b0
movq %rax, 0x38(%rsp)
movq 0x38(%rsp), %rdi
callq 0xf7040
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rdx
leaq 0x4c6dce(%rip), %rdi    # 0x529118
leaq 0x4c6dd5(%rip), %rsi    # 0x529126
xorl %ecx, %ecx
callq 0xf5f20
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x38(%rsp), %rdi
callq 0xf7040
movq 0x48(%rsp), %rdi
addq $0x1, %rdi
callq 0xf5f90
movq %rax, 0x18(%rsp)
movq 0x40(%rsp), %rdi
movq 0x18(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rdx
addq $0x2, %rdx
leaq 0x4f6a17(%rip), %rdi    # 0x558dbf
leaq 0x4c1405(%rip), %rsi    # 0x5237b4
xorl %ecx, %ecx
callq 0xf5f20
movq %rax, 0x20(%rsp)
movq 0x20(%rsp), %rdi
movq 0x18(%rsp), %rsi
callq 0xf7320
movq 0x40(%rsp), %rdi
movq 0x20(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rdx
addq $0x68, %rdx
leaq 0x4c334c(%rip), %rdi    # 0x525735
leaq 0x4c334c(%rip), %rsi    # 0x52573c
movq $-0x1, %rcx
callq 0xf5fe0
movq %rax, 0x8(%rsp)
movq 0x8(%rsp), %rdi
callq 0xf7400
movq 0x8(%rsp), %rdi
callq 0xf6ff0
movq 0x40(%rsp), %rdi
movq 0x8(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rdx
addq $0x70, %rdx
leaq 0x4c334c(%rip), %rdi    # 0x525780
leaq 0x4c334d(%rip), %rsi    # 0x525788
movl $0x3, %ecx
movl $0x7f, %r8d
callq 0xf6570
movq %rax, 0x38(%rsp)
movq 0x38(%rsp), %rdi
callq 0xf6ff0
movq 0x38(%rsp), %rdi
movq 0x8(%rsp), %rsi
callq 0xf7090
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rdx
addq $0x60, %rdx
leaq 0x522cf3(%rip), %rdi    # 0x58517b
leaq 0x4c3335(%rip), %rsi    # 0x5257c4
xorl %ecx, %ecx
callq 0xf5f20
movq %rax, 0x38(%rsp)
movq 0x38(%rsp), %rdi
callq 0xf6ff0
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x48(%rsp), %rdx
addq $0x7, %rdx
leaq 0x4c6c92(%rip), %rdi    # 0x529156
leaq 0x4c6c97(%rip), %rsi    # 0x529162
movl $0x1, %ecx
callq 0xf5f20
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x38(%rsp), %rdi
callq 0xf7040
movq 0x48(%rsp), %rdx
addq $0x6, %rdx
leaq 0x4b92f0(%rip), %rdi    # 0x51b7f3
leaq 0x4b92f5(%rip), %rsi    # 0x51b7ff
xorl %ecx, %ecx
callq 0xf5f20
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x38(%rsp), %rdi
callq 0xf7040
movq 0x48(%rsp), %rdx
addq $0x3, %rdx
leaq 0x4b9343(%rip), %rdi    # 0x51b882
leaq 0x4b9346(%rip), %rsi    # 0x51b88c
xorl %ecx, %ecx
callq 0xf5f20
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x38(%rsp), %rdi
callq 0xf7040
movq 0x48(%rsp), %rdx
addq $0x4, %rdx
leaq 0x4c6c05(%rip), %rdi    # 0x529180
leaq 0x4b9332(%rip), %rsi    # 0x51b8b4
xorl %ecx, %ecx
callq 0xf5f20
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x38(%rsp), %rdi
callq 0xf7040
movq 0x48(%rsp), %rdx
addq $0x20, %rdx
leaq 0x4b9316(%rip), %rdi    # 0x51b8cd
leaq 0x4b92f6(%rip), %rsi    # 0x51b8b4
movl $0x5, %ecx
callq 0xf64b0
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x38(%rsp), %rdi
callq 0xf7040
movq 0x48(%rsp), %rdx
addq $0x5, %rdx
leaq 0x4b93a5(%rip), %rdi    # 0x51b99b
leaq 0x4b93a9(%rip), %rsi    # 0x51b9a6
xorl %ecx, %ecx
callq 0xf5f20
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x38(%rsp), %rdi
callq 0xf7040
movq 0x48(%rsp), %rdx
addq $0x1c, %rdx
leaq 0x4b9393(%rip), %rdi    # 0x51b9c5
leaq 0x4b9397(%rip), %rsi    # 0x51b9d0
movl $0x1, %ecx
callq 0xf64b0
movq %rax, 0x38(%rsp)
movq 0x40(%rsp), %rdi
movq 0x38(%rsp), %rsi
callq 0xf1600
movq 0x38(%rsp), %rdi
callq 0xf7040
movq 0x40(%rsp), %rdi
xorl %esi, %esi
callq 0xf29e0
movq 0x40(%rsp), %rax
addq $0x58, %rsp
retq
nopw (%rax,%rax)