LLM4Binary/decompile-bench-makefile huggingface dataset:
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/sfx-opt.c
// Function: gt_sfxoptions_delete
void gt_sfxoptions_delete(Suffixeratoroptions *so)
{
  /* no checking if error occurs, since errors have been output before */
  gt_index_options_delete(so->idxopts);
  gt_encseq_options_delete(so->encopts);
  gt_encseq_options_delete(so->loadopts);
  gt_str_delete(so->indexname);
  gt_str_delete(so->inputindex);
  gt_str_array_delete(so->db);
}

// Assembly:
pushq %rax
movq %rdi, (%rsp)
movq (%rsp), %rax
movq 0x18(%rax), %rdi
callq 0x25c790
movq (%rsp), %rax
movq 0x8(%rax), %rdi
callq 0xd82c0
movq (%rsp), %rax
movq 0x10(%rax), %rdi
callq 0xd82c0
movq (%rsp), %rax
movq 0x20(%rax), %rdi
callq 0x11f560
movq (%rsp), %rax
movq 0x28(%rax), %rdi
callq 0x11f560
movq (%rsp), %rax
movq 0x30(%rax), %rdi
callq 0x11fd20
popq %rax
retq
nopw %cs:(%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/sfx-opt.c
// Function: gt_suffixeratoroptions
int gt_suffixeratoroptions(Suffixeratoroptions *so,
                        bool doesa,
                        int argc,
                        const char **argv,
                        GtError *err)
{
  int parsed_args, retval = 0;
  GtOPrval rval;

  gt_error_check(err);
  rval = parse_options(&parsed_args, doesa, so, argc, argv, err);
  if (rval == GT_OPTION_PARSER_ERROR)
  {
    retval = -1;
  } else
  {
    if (rval == GT_OPTION_PARSER_REQUESTS_EXIT)
    {
      retval = 2;
    } else
    {
      if (rval == GT_OPTION_PARSER_OK)
      {
        if (so->beverbose)
        {
          showoptions(so);
        }
      }
    }
  }
  return retval;
}

// Assembly:
subq $0x38, %rsp
movb %sil, %al
movq %rdi, 0x30(%rsp)
andb $0x1, %al
movb %al, 0x2f(%rsp)
movl %edx, 0x28(%rsp)
movq %rcx, 0x20(%rsp)
movq %r8, 0x18(%rsp)
movl $0x0, 0x10(%rsp)
cmpq $0x0, 0x18(%rsp)
je 0x4e3e88
movq 0x18(%rsp), %rdi
callq 0xd8a60
testb $0x1, %al
jne 0x4e3e50
jmp 0x4e3e88
movq 0x158149(%rip), %rax    # 0x63bfa0
movq (%rax), %rdi
leaq 0x321b2(%rip), %rsi     # 0x516013
leaq 0x32357(%rip), %rdx     # 0x5161bf
leaq 0xd6f25(%rip), %rcx     # 0x5bad94
leaq 0xd6f35(%rip), %r8      # 0x5badab
movl $0xf3, %r9d
movb $0x0, %al
callq 0x199f0
callq 0x19370
jmp 0x4e3e8a
movb 0x2f(%rsp), %al
movq 0x30(%rsp), %rdx
movl 0x28(%rsp), %ecx
movq 0x20(%rsp), %r8
movq 0x18(%rsp), %r9
leaq 0x14(%rsp), %rdi
andb $0x1, %al
movzbl %al, %esi
callq 0x4e3f00
movl %eax, 0xc(%rsp)
cmpl $0x1, 0xc(%rsp)
jne 0x4e3ec5
movl $0xffffffff, 0x10(%rsp) # imm = 0xFFFFFFFF
jmp 0x4e3ef7
cmpl $0x2, 0xc(%rsp)
jne 0x4e3ed6
movl $0x2, 0x10(%rsp)
jmp 0x4e3ef5
cmpl $0x0, 0xc(%rsp)
jne 0x4e3ef3
movq 0x30(%rsp), %rax
testb $0x1, (%rax)
je 0x4e3ef1
movq 0x30(%rsp), %rdi
callq 0x4e43c0
jmp 0x4e3ef3
jmp 0x4e3ef5
jmp 0x4e3ef7
movl 0x10(%rsp), %eax
addq $0x38, %rsp
retq
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/sfx-outprj.c
// Function: gt_outprjfile
int gt_outprjfile(const char *indexname,
                  GtReadmode readmode,
                  const GtEncseq *encseq,
                  GtUword numberofallsortedsuffixes,
                  unsigned int prefixlength,
                  GtUword numoflargelcpvalues,
                  double averagelcp,
                  GtUword maxbranchdepth,
                  const Definedunsignedlong *longest,
                  GtError *err)
{
  FILE *prjfp;
  bool haserr = false;

  gt_error_check(err);
  prjfp = gt_fa_fopen_with_suffix(indexname,GT_PROJECTFILESUFFIX,"wb",err);
  if (prjfp == NULL)
  {
    haserr = true;
  }
  if (!haserr)
  {
    showprjinfo(prjfp,
                readmode,
                encseq,
                numberofallsortedsuffixes,
                prefixlength,
                numoflargelcpvalues,
                averagelcp,
                maxbranchdepth,
                longest);
    gt_fa_xfclose(prjfp);
  }
  return haserr ? -1 : 0;
}

// Assembly:
subq $0x58, %rsp
movq 0x70(%rsp), %rax
movq 0x68(%rsp), %rax
movq 0x60(%rsp), %rax
movq %rdi, 0x50(%rsp)
movl %esi, 0x4c(%rsp)
movq %rdx, 0x40(%rsp)
movq %rcx, 0x38(%rsp)
movl %r8d, 0x34(%rsp)
movq %r9, 0x28(%rsp)
movsd %xmm0, 0x20(%rsp)
movb $0x0, 0x17(%rsp)
cmpq $0x0, 0x70(%rsp)
je 0x4e4beb
movq 0x70(%rsp), %rdi
callq 0xd8a60
testb $0x1, %al
jne 0x4e4bb3
jmp 0x4e4beb
movq 0x1573e6(%rip), %rax    # 0x63bfa0
movq (%rax), %rdi
leaq 0x3144f(%rip), %rsi     # 0x516013
leaq 0x315f4(%rip), %rdx     # 0x5161bf
leaq 0xd649c(%rip), %rcx     # 0x5bb06e
leaq 0xd64a3(%rip), %r8      # 0x5bb07c
movl $0x62, %r9d
movb $0x0, %al
callq 0x199f0
callq 0x19370
jmp 0x4e4bed
movq 0x50(%rsp), %rdi
movq 0x70(%rsp), %r9
leaq 0x39dc3(%rip), %rsi     # 0x51e9c1
leaq 0x41f98(%rip), %rdx     # 0x526b9d
leaq 0xd6470(%rip), %rcx     # 0x5bb07c
movl $0x63, %r8d
callq 0xd92c0
movq %rax, 0x18(%rsp)
cmpq $0x0, 0x18(%rsp)
jne 0x4e4c29
movb $0x1, 0x17(%rsp)
testb $0x1, 0x17(%rsp)
jne 0x4e4c75
movq 0x18(%rsp), %rdi
movl 0x4c(%rsp), %esi
movq 0x40(%rsp), %rdx
movq 0x38(%rsp), %rcx
movl 0x34(%rsp), %r8d
movq 0x28(%rsp), %r9
movsd 0x20(%rsp), %xmm0
movq 0x60(%rsp), %r10
movq 0x68(%rsp), %rax
movq %r10, (%rsp)
movq %rax, 0x8(%rsp)
callq 0x4e4c90
movq 0x18(%rsp), %rdi
callq 0xd9570
movb 0x17(%rsp), %dl
xorl %eax, %eax
movl $0xffffffff, %ecx       # imm = 0xFFFFFFFF
testb $0x1, %dl
cmovnel %ecx, %eax
addq $0x58, %rsp
retq
nopl (%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/shu-dfs.c
// Function: initialise_node
static int initialise_node(void *node)
{
  int had_err = 0;
  ShuNode *tobeinitialised;
  tobeinitialised = (ShuNode *) node;
  tobeinitialised->countTermSubtree = NULL;
  return had_err;
}

// Assembly:
movq %rdi, -0x8(%rsp)
movl $0x0, -0xc(%rsp)
movq -0x8(%rsp), %rax
movq %rax, -0x18(%rsp)
movq -0x18(%rsp), %rax
movq $0x0, 0x8(%rax)
movl -0xc(%rsp), %eax
retq
nopl (%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/shu-dfs.c
// Function: get_special_pos
static inline GtUword **get_special_pos(const FMindex *index,
                                         BwtSeqpositionextractor *pos_extractor,
                                         GtUword num_of_specials)
{
  GtUword row_idx, special_idx = 0,
                **special_char_rows_and_pos,
                first_special_row;
  GtUchar cc;

  first_special_row = gt_pck_get_nonspecial_count(index);

  gt_array2dim_calloc(special_char_rows_and_pos,
                      2UL,
                      num_of_specials);

  for (row_idx = 0; row_idx < first_special_row; row_idx ++)
  {
    cc = gt_bwtseqgetsymbol(row_idx, index);
    if (GT_ISSPECIAL(cc))
    {
      special_char_rows_and_pos[0][special_idx] = row_idx;
      special_char_rows_and_pos[1][special_idx] =
        gt_BwtSeqpositionextractor_extract(pos_extractor, row_idx);
      special_idx++;
    }
  }
  gt_assert(special_idx == num_of_specials);
  return special_char_rows_and_pos;
}

// Assembly:
subq $0x48, %rsp
movq %rdi, 0x40(%rsp)
movq %rsi, 0x38(%rsp)
movq %rdx, 0x30(%rsp)
movq $0x0, 0x20(%rsp)
movq 0x40(%rsp), %rdi
callq 0x231250
movq %rax, 0x10(%rsp)
movl $0x10, %edi
leaq 0xd57b9(%rip), %rsi     # 0x5bb1c0
movl $0x56, %edx
callq 0xe80f0
movq %rax, 0x18(%rsp)
movq 0x30(%rsp), %rdi
shlq %rdi
movl $0x8, %esi
leaq 0xd5796(%rip), %rdx     # 0x5bb1c0
movl $0x56, %ecx
callq 0xe83c0
movq %rax, %rcx
movq 0x18(%rsp), %rax
movq %rcx, (%rax)
movq $0x1, (%rsp)
cmpq $0x2, (%rsp)
jae 0x4e5a86
movq 0x18(%rsp), %rax
movq (%rsp), %rcx
subq $0x1, %rcx
movq (%rax,%rcx,8), %rdx
movq 0x30(%rsp), %rax
shlq $0x3, %rax
addq %rax, %rdx
movq 0x18(%rsp), %rax
movq (%rsp), %rcx
movq %rdx, (%rax,%rcx,8)
movq (%rsp), %rax
addq $0x1, %rax
movq %rax, (%rsp)
jmp 0x4e5a47
movq $0x0, 0x28(%rsp)
movq 0x28(%rsp), %rax
cmpq 0x10(%rsp), %rax
jae 0x4e5b17
movq 0x28(%rsp), %rdi
movq 0x40(%rsp), %rsi
callq 0x22f780
movb %al, 0xf(%rsp)
movzbl 0xf(%rsp), %eax
cmpl $0xfe, %eax
jl 0x4e5b02
movq 0x28(%rsp), %rdx
movq 0x18(%rsp), %rax
movq (%rax), %rax
movq 0x20(%rsp), %rcx
movq %rdx, (%rax,%rcx,8)
movq 0x38(%rsp), %rdi
movq 0x28(%rsp), %rsi
callq 0x22f670
movq %rax, %rdx
movq 0x18(%rsp), %rax
movq 0x8(%rax), %rax
movq 0x20(%rsp), %rcx
movq %rdx, (%rax,%rcx,8)
movq 0x20(%rsp), %rax
addq $0x1, %rax
movq %rax, 0x20(%rsp)
jmp 0x4e5b04
movq 0x28(%rsp), %rax
addq $0x1, %rax
movq %rax, 0x28(%rsp)
jmp 0x4e5a8f
jmp 0x4e5b19
movq 0x20(%rsp), %rax
cmpq 0x30(%rsp), %rax
je 0x4e5b5d
movq 0x156474(%rip), %rax    # 0x63bfa0
movq (%rax), %rdi
leaq 0x304dd(%rip), %rsi     # 0x516013
leaq 0xd56fe(%rip), %rdx     # 0x5bb23b
leaq 0xd5716(%rip), %rcx     # 0x5bb25a
leaq 0xd5675(%rip), %r8      # 0x5bb1c0
movl $0x63, %r9d
movb $0x0, %al
callq 0x199f0
callq 0x19370
jmp 0x4e5b5f
movq 0x18(%rsp), %rax
addq $0x48, %rsp
retq
nopl (%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/shu-dfs.c
// Function: add_filenum_count
static inline void add_filenum_count(GtUword lower,
                                     GtUword upper,
                                     ShuNode *parent,
                                     BwtSeqpositionextractor *pos_extractor,
                                     GtUword total_length,
                                     const GtShuUnitFileInfo *unit_info,
                                     const GtEncseq *encseq)
{
  GtUword row;

  for (row = lower; row < upper; row++)
  {
    GtUword filenum, position;

    position = gt_BwtSeqpositionextractor_extract(pos_extractor, row);
    if (total_length <= position)
    {
      filenum = unit_info->num_of_files - 1;
    }
    else
    {
      gt_assert((position + 1) <= total_length);
      position = total_length - (position + 1);
      filenum = gt_encseq_filenum(encseq, position);
    }
    /*mapping to genome_num*/
    if (unit_info->map_files != NULL)
    {
      parent->countTermSubtree[0][unit_info->map_files[filenum]]++;
    }
    else
    {
      parent->countTermSubtree[0][filenum]++;
    }
  }
}

// Assembly:
subq $0x48, %rsp
movq 0x50(%rsp), %rax
movq %rdi, 0x40(%rsp)
movq %rsi, 0x38(%rsp)
movq %rdx, 0x30(%rsp)
movq %rcx, 0x28(%rsp)
movq %r8, 0x20(%rsp)
movq %r9, 0x18(%rsp)
movq 0x40(%rsp), %rax
movq %rax, 0x10(%rsp)
movq 0x10(%rsp), %rax
cmpq 0x38(%rsp), %rax
jae 0x4e6e2f
movq 0x28(%rsp), %rdi
movq 0x10(%rsp), %rsi
callq 0x22f670
movq %rax, (%rsp)
movq 0x20(%rsp), %rax
cmpq (%rsp), %rax
ja 0x4e6d53
movq 0x18(%rsp), %rax
movq 0x8(%rax), %rax
subq $0x1, %rax
movq %rax, 0x8(%rsp)
jmp 0x4e6dc5
jmp 0x4e6d55
movq (%rsp), %rax
addq $0x1, %rax
cmpq 0x20(%rsp), %rax
jbe 0x4e6d9c
movq 0x155235(%rip), %rax    # 0x63bfa0
movq (%rax), %rdi
leaq 0x2f29e(%rip), %rsi     # 0x516013
leaq 0xd46d6(%rip), %rdx     # 0x5bb452
leaq 0xd46fd(%rip), %rcx     # 0x5bb480
leaq 0xd4436(%rip), %r8      # 0x5bb1c0
movl $0x39, %r9d
movb $0x0, %al
callq 0x199f0
callq 0x19370
jmp 0x4e6d9e
movq 0x20(%rsp), %rax
movq (%rsp), %rcx
addq $0x1, %rcx
subq %rcx, %rax
movq %rax, (%rsp)
movq 0x50(%rsp), %rdi
movq (%rsp), %rsi
callq 0xc2af0
movq %rax, 0x8(%rsp)
movq 0x18(%rsp), %rax
cmpq $0x0, 0x20(%rax)
je 0x4e6dfd
movq 0x30(%rsp), %rax
movq 0x8(%rax), %rax
movq (%rax), %rax
movq 0x18(%rsp), %rcx
movq 0x20(%rcx), %rcx
movq 0x8(%rsp), %rdx
movq (%rcx,%rdx,8), %rcx
movq (%rax,%rcx,8), %rdx
addq $0x1, %rdx
movq %rdx, (%rax,%rcx,8)
jmp 0x4e6e1a
movq 0x30(%rsp), %rax
movq 0x8(%rax), %rax
movq (%rax), %rax
movq 0x8(%rsp), %rcx
movq (%rax,%rcx,8), %rdx
addq $0x1, %rdx
movq %rdx, (%rax,%rcx,8)
jmp 0x4e6e1c
movq 0x10(%rsp), %rax
addq $0x1, %rax
movq %rax, 0x10(%rsp)
jmp 0x4e6d11
addq $0x48, %rsp
retq
nopw %cs:(%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/shu-dfs.c
// Function: get_start_idx_binary_search
static inline GtUword get_start_idx_binary_search(ShuNode *parent,
                                                  GtUword **special_pos,
                                                  GtUword max_idx)
{
  GtUword start_idx = 0;

  if (parent->lower <= special_pos[0][0])
  {
    start_idx = 0;
  }
  else
  {
    if (special_pos[0][max_idx - 1] < parent->lower)
    {
      start_idx = max_idx;
    }
    else
    {
      GtUword left, mid, right, len;
      left = 0;
      right = max_idx - 1;
      while (left<=right)
      {
        len = (GtUword) (right - left);
        mid = left + GT_DIV2(len);
        if (special_pos[0][mid] < parent->lower)
        {
          if (parent->lower <= special_pos[0][mid+1])
          {
            start_idx = mid + 1;
            break;
          }
          left = mid + 1;
        }
        else
        {
          if (special_pos[0][mid - 1] < parent->lower)
          {
            start_idx = mid;
            break;
          }
          right = mid - 1;
        }
      }
    }
  }
  return start_idx;
}

// Assembly:
movq %rdi, -0x8(%rsp)
movq %rsi, -0x10(%rsp)
movq %rdx, -0x18(%rsp)
movq $0x0, -0x20(%rsp)
movq -0x8(%rsp), %rax
movq 0x18(%rax), %rax
movq -0x10(%rsp), %rcx
movq (%rcx), %rcx
cmpq (%rcx), %rax
ja 0x4e6e7c
movq $0x0, -0x20(%rsp)
jmp 0x4e6f92
movq -0x10(%rsp), %rax
movq (%rax), %rax
movq -0x18(%rsp), %rcx
subq $0x1, %rcx
movq (%rax,%rcx,8), %rax
movq -0x8(%rsp), %rcx
cmpq 0x18(%rcx), %rax
jae 0x4e6eab
movq -0x18(%rsp), %rax
movq %rax, -0x20(%rsp)
jmp 0x4e6f90
movq $0x0, -0x28(%rsp)
movq -0x18(%rsp), %rax
subq $0x1, %rax
movq %rax, -0x38(%rsp)
movq -0x28(%rsp), %rax
cmpq -0x38(%rsp), %rax
ja 0x4e6f8e
movq -0x38(%rsp), %rax
subq -0x28(%rsp), %rax
movq %rax, -0x40(%rsp)
movq -0x28(%rsp), %rax
movq -0x40(%rsp), %rcx
shrq %rcx
addq %rcx, %rax
movq %rax, -0x30(%rsp)
movq -0x10(%rsp), %rax
movq (%rax), %rax
movq -0x30(%rsp), %rcx
movq (%rax,%rcx,8), %rax
movq -0x8(%rsp), %rcx
cmpq 0x18(%rcx), %rax
jae 0x4e6f4f
movq -0x8(%rsp), %rax
movq 0x18(%rax), %rax
movq -0x10(%rsp), %rcx
movq (%rcx), %rcx
movq -0x30(%rsp), %rdx
cmpq 0x8(%rcx,%rdx,8), %rax
ja 0x4e6f3f
movq -0x30(%rsp), %rax
addq $0x1, %rax
movq %rax, -0x20(%rsp)
jmp 0x4e6f8e
movq -0x30(%rsp), %rax
addq $0x1, %rax
movq %rax, -0x28(%rsp)
jmp 0x4e6f89
movq -0x10(%rsp), %rax
movq (%rax), %rax
movq -0x30(%rsp), %rcx
subq $0x1, %rcx
movq (%rax,%rcx,8), %rax
movq -0x8(%rsp), %rcx
cmpq 0x18(%rcx), %rax
jae 0x4e6f7b
movq -0x30(%rsp), %rax
movq %rax, -0x20(%rsp)
jmp 0x4e6f8e
movq -0x30(%rsp), %rax
subq $0x1, %rax
movq %rax, -0x38(%rsp)
jmp 0x4e6ec2
jmp 0x4e6f90
jmp 0x4e6f92
movq -0x20(%rsp), %rax
retq
nopl (%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/shu-divergence.c
// Function: gt_get_ln_n_fac
double *gt_get_ln_n_fac(GtUword n)
{
  GtUword i;
  double *ln_n_fac;

  ln_n_fac = gt_calloc((size_t) n + 1, sizeof (double));

  ln_n_fac[0] = log(1.0);
  for (i = 1UL; i <= n; i++) {
    ln_n_fac[i] = log((double) i) + ln_n_fac[i-1];
  }
  return ln_n_fac;
}

// Assembly:
subq $0x18, %rsp
movq %rdi, 0x10(%rsp)
movq 0x10(%rsp), %rdi
addq $0x1, %rdi
movl $0x8, %esi
leaq 0xd40aa(%rip), %rdx     # 0x5bb4a8
movl $0xb2, %ecx
callq 0xe83c0
movq %rax, (%rsp)
movsd 0x2fe2c(%rip), %xmm0    # 0x517240
callq 0x195c0
movq (%rsp), %rax
movsd %xmm0, (%rax)
movq $0x1, 0x8(%rsp)
movq 0x8(%rsp), %rax
cmpq 0x10(%rsp), %rax
ja 0x4e7493
movaps 0x314f3(%rip), %xmm1    # 0x518930
movq 0x8(%rsp), %xmm0
punpckldq %xmm1, %xmm0    # xmm0 = xmm0[0],xmm1[0],xmm0[1],xmm1[1]
movapd 0x314f1(%rip), %xmm1    # 0x518940
subpd %xmm1, %xmm0
movaps %xmm0, %xmm1
unpckhpd %xmm0, %xmm0            # xmm0 = xmm0[1,1]
addsd %xmm1, %xmm0
callq 0x195c0
movq (%rsp), %rax
movq 0x8(%rsp), %rcx
subq $0x1, %rcx
addsd (%rax,%rcx,8), %xmm0
movq (%rsp), %rax
movq 0x8(%rsp), %rcx
movsd %xmm0, (%rax,%rcx,8)
movq 0x8(%rsp), %rax
addq $0x1, %rax
movq %rax, 0x8(%rsp)
jmp 0x4e742a
movq (%rsp), %rax
addq $0x18, %rsp
retq
nopl (%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/tyr-map.c
// Function: gt_decodesingleinteger
GtUword gt_decodesingleinteger(const GtUchar *start)
{
  GtUword idx, value;

  value = (GtUword) start[0];
  for (idx=1UL; idx < (GtUword) sizeof (GtUword); idx++)
  {
    value |= (((GtUword) start[idx]) << GT_MULT8(idx));
  }
  return value;
}

// Assembly:
movq %rdi, -0x8(%rsp)
movq -0x8(%rsp), %rax
movzbl (%rax), %eax
movq %rax, -0x18(%rsp)
movq $0x1, -0x10(%rsp)
cmpq $0x8, -0x10(%rsp)
jae 0x4e7d07
movq -0x8(%rsp), %rax
movq -0x10(%rsp), %rcx
movzbl (%rax,%rcx), %eax
movq -0x10(%rsp), %rcx
shlq $0x3, %rcx
shlq %cl, %rax
orq -0x18(%rsp), %rax
movq %rax, -0x18(%rsp)
movq -0x10(%rsp), %rax
addq $0x1, %rax
movq %rax, -0x10(%rsp)
jmp 0x4e7ccb
movq -0x18(%rsp), %rax
retq
nopl (%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/tyr-map.c
// Function: gt_tyrindex_show
void gt_tyrindex_show(const Tyrindex *tyrindex)
{
  printf("# indexfilename = %s\n",tyrindex->indexfilename);
  printf("# alphasize = %u\n",tyrindex->alphasize);
  printf("# mersize = "GT_WU"\n",tyrindex->mersize);
  printf("# numofmers = "GT_WU"\n",(GtUword) tyrindex->numofmers);
  printf("# merbytes = "GT_WU"\n",tyrindex->merbytes);
}

// Assembly:
pushq %rax
movq %rdi, (%rsp)
movq (%rsp), %rax
movq 0x8(%rax), %rsi
leaq 0xd35d6(%rip), %rdi     # 0x5bb66a
movb $0x0, %al
callq 0x19070
movq (%rsp), %rax
movl 0x10(%rax), %esi
leaq 0xd35d7(%rip), %rdi     # 0x5bb680
movb $0x0, %al
callq 0x19070
movq (%rsp), %rax
movq 0x20(%rax), %rsi
leaq 0xd35d3(%rip), %rdi     # 0x5bb692
movb $0x0, %al
callq 0x19070
movq (%rsp), %rax
movq 0x18(%rax), %rsi
leaq 0xd35ce(%rip), %rdi     # 0x5bb6a3
movb $0x0, %al
callq 0x19070
movq (%rsp), %rax
movq 0x28(%rax), %rsi
leaq 0xd35cb(%rip), %rdi     # 0x5bb6b6
movb $0x0, %al
callq 0x19070
popq %rax
retq
nopw %cs:(%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/tyr-map.c
// Function: gt_tyrindex_delete
void gt_tyrindex_delete(Tyrindex **tyrindexptr)
{
  Tyrindex *tyrindex = *tyrindexptr;

  gt_fa_xmunmap(tyrindex->mappedfileptr);
  tyrindex->mappedfileptr = NULL;
  gt_free(tyrindex);
  *tyrindexptr = NULL;
}

// Assembly:
subq $0x18, %rsp
movq %rdi, 0x10(%rsp)
movq 0x10(%rsp), %rax
movq (%rax), %rax
movq %rax, 0x8(%rsp)
movq 0x8(%rsp), %rax
movq (%rax), %rdi
callq 0xdb2a0
movq 0x8(%rsp), %rax
movq $0x0, (%rax)
movq 0x8(%rsp), %rdi
leaq 0xd33f6(%rip), %rsi     # 0x5bb5e1
movl $0xb6, %edx
callq 0xe88c0
movq 0x10(%rsp), %rax
movq $0x0, (%rax)
addq $0x18, %rsp
retq
nopw %cs:(%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/tyr-map.c
// Function: gt_tyrcountinfo_get
GtUword gt_tyrcountinfo_get(const Tyrcountinfo *tyrcountinfo,
                               GtUword mernumber)
{
  if (tyrcountinfo->smallcounts[mernumber] == 0)
  {
    const Largecount *lc
      = binsearchLargecount(mernumber,
                            tyrcountinfo->largecounts,
                            tyrcountinfo->largecounts +
                            tyrcountinfo->numoflargecounts-1);
#ifndef NDEBUG
    if (lc == NULL)
    {
      fprintf(stderr,"cannot find count for mer number "GT_WU"",mernumber);
      exit(GT_EXIT_PROGRAMMING_ERROR);
    }
#endif
    gt_assert (lc != NULL);
    return lc->value;
  }
  return (GtUword) tyrcountinfo->smallcounts[mernumber];
}

// Assembly:
subq $0x28, %rsp
movq %rdi, 0x18(%rsp)
movq %rsi, 0x10(%rsp)
movq 0x18(%rsp), %rax
movq 0x10(%rax), %rax
movq 0x10(%rsp), %rcx
movzbl (%rax,%rcx), %eax
cmpl $0x0, %eax
jne 0x4e8521
movq 0x10(%rsp), %rdi
movq 0x18(%rsp), %rax
movq 0x18(%rax), %rsi
movq 0x18(%rsp), %rax
movq 0x18(%rax), %rdx
movq 0x18(%rsp), %rax
movq 0x20(%rax), %rax
shlq $0x4, %rax
addq %rax, %rdx
addq $-0x10, %rdx
callq 0x4e8550
movq %rax, 0x8(%rsp)
cmpq $0x0, 0x8(%rsp)
jne 0x4e84cd
movq 0x153af3(%rip), %rax    # 0x63bfa0
movq (%rax), %rdi
movq 0x10(%rsp), %rdx
leaq 0xd328f(%rip), %rsi     # 0x5bb74b
movb $0x0, %al
callq 0x199f0
movl $0x2, %edi
callq 0x19890
jmp 0x4e84cf
cmpq $0x0, 0x8(%rsp)
jne 0x4e850f
movq 0x153ac2(%rip), %rax    # 0x63bfa0
movq (%rax), %rdi
leaq 0x2db2b(%rip), %rsi     # 0x516013
leaq 0xd3281(%rip), %rdx     # 0x5bb770
leaq 0xd3285(%rip), %rcx     # 0x5bb77b
leaq 0xd30e4(%rip), %r8      # 0x5bb5e1
movl $0x121, %r9d            # imm = 0x121
movb $0x0, %al
callq 0x199f0
callq 0x19370
jmp 0x4e8511
movq 0x8(%rsp), %rax
movq 0x8(%rax), %rax
movq %rax, 0x20(%rsp)
jmp 0x4e8538
movq 0x18(%rsp), %rax
movq 0x10(%rax), %rax
movq 0x10(%rsp), %rcx
movzbl (%rax,%rcx), %eax
movq %rax, 0x20(%rsp)
movq 0x20(%rsp), %rax
addq $0x28, %rsp
retq
nopw %cs:(%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/tyr-map.c
// Function: binsearchLargecount
static /*@null@*/ const Largecount *binsearchLargecount(GtUword key,
                                                        const Largecount *left,
                                                        const Largecount *right)
{
  const Largecount *leftptr = left, *midptr, *rightptr = right;
  GtUword len;

  while (leftptr<=rightptr)
  {
    len = (GtUword) (rightptr-leftptr);
    midptr = leftptr + GT_DIV2(len); /* halve len */
    if (key < midptr->idx)
    {
      rightptr = midptr-1;
    } else
    {
      if (key > midptr->idx)
      {
        leftptr = midptr + 1;
      } else
      {
        return midptr;
      }
    }
  }
  return NULL;
}

// Assembly:
movq %rdi, -0x10(%rsp)
movq %rsi, -0x18(%rsp)
movq %rdx, -0x20(%rsp)
movq -0x18(%rsp), %rax
movq %rax, -0x28(%rsp)
movq -0x20(%rsp), %rax
movq %rax, -0x38(%rsp)
movq -0x28(%rsp), %rax
cmpq -0x38(%rsp), %rax
ja 0x4e8603
movq -0x38(%rsp), %rax
movq -0x28(%rsp), %rcx
subq %rcx, %rax
sarq $0x4, %rax
movq %rax, -0x40(%rsp)
movq -0x28(%rsp), %rax
movq -0x40(%rsp), %rcx
shrq %rcx
shlq $0x4, %rcx
addq %rcx, %rax
movq %rax, -0x30(%rsp)
movq -0x10(%rsp), %rax
movq -0x30(%rsp), %rcx
cmpq (%rcx), %rax
jae 0x4e85d1
movq -0x30(%rsp), %rax
addq $-0x10, %rax
movq %rax, -0x38(%rsp)
jmp 0x4e85fe
movq -0x10(%rsp), %rax
movq -0x30(%rsp), %rcx
cmpq (%rcx), %rax
jbe 0x4e85f0
movq -0x30(%rsp), %rax
addq $0x10, %rax
movq %rax, -0x28(%rsp)
jmp 0x4e85fc
movq -0x30(%rsp), %rax
movq %rax, -0x8(%rsp)
jmp 0x4e860c
jmp 0x4e85fe
jmp 0x4e8573
movq $0x0, -0x8(%rsp)
movq -0x8(%rsp), %rax
retq
nopw %cs:(%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/tyr-map.c
// Function: gt_tyrcountinfo_delete
void gt_tyrcountinfo_delete(Tyrcountinfo **tyrcountinfoptr)
{
  Tyrcountinfo *tyrcountinfo = *tyrcountinfoptr;

  gt_fa_xmunmap(tyrcountinfo->mappedmctfileptr);
  tyrcountinfo->mappedmctfileptr = NULL;
  gt_free(tyrcountinfo);
  *tyrcountinfoptr = NULL;
}

// Assembly:
subq $0x18, %rsp
movq %rdi, 0x10(%rsp)
movq 0x10(%rsp), %rax
movq (%rax), %rax
movq %rax, 0x8(%rsp)
movq 0x8(%rsp), %rax
movq (%rax), %rdi
callq 0xdb2a0
movq 0x8(%rsp), %rax
movq $0x0, (%rax)
movq 0x8(%rsp), %rdi
leaq 0xd2f86(%rip), %rsi     # 0x5bb5e1
movl $0x12d, %edx            # imm = 0x12D
callq 0xe88c0
movq 0x10(%rsp), %rax
movq $0x0, (%rax)
addq $0x18, %rsp
retq
nopw %cs:(%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/tyr-map.c
// Function: gt_tyrindex_binmersearch
const GtUchar *gt_tyrindex_binmersearch(const Tyrindex *tyrindex,
                                              GtUword offset,
                                              const GtUchar *key,
                                              const GtUchar *leftbound,
                                              const GtUchar *rightbound)
{
  const GtUchar *leftptr, *midptr, *rightptr;
  int cmpval;
  GtUword leftlength = offset, rightlength = offset, len;

  leftptr = leftbound;
  rightptr = rightbound;
  while (leftptr <= rightptr)
  {
    len = (GtUword) (rightptr-leftptr)/GT_MULT2(tyrindex->merbytes);
    midptr = leftptr + tyrindex->merbytes * len;
    cmpval = mymemcmp(&offset,midptr,key,tyrindex->merbytes);
    if (cmpval < 0)
    {
      leftptr = midptr + tyrindex->merbytes;
      leftlength = offset;
      if (offset > rightlength)
      {
        offset = rightlength;
      }
    } else
    {
      if (cmpval > 0)
      {
        rightptr = midptr - tyrindex->merbytes;
        rightlength = offset;
        if (offset > leftlength)
        {
          offset = leftlength;
        }
      } else
      {
        return midptr;
      }
    }
  }
  return NULL;
}

// Assembly:
subq $0x68, %rsp
movq %rdi, 0x58(%rsp)
movq %rsi, 0x50(%rsp)
movq %rdx, 0x48(%rsp)
movq %rcx, 0x40(%rsp)
movq %r8, 0x38(%rsp)
movq 0x50(%rsp), %rax
movq %rax, 0x10(%rsp)
movq 0x50(%rsp), %rax
movq %rax, 0x8(%rsp)
movq 0x40(%rsp), %rax
movq %rax, 0x30(%rsp)
movq 0x38(%rsp), %rax
movq %rax, 0x20(%rsp)
movq 0x30(%rsp), %rax
cmpq 0x20(%rsp), %rax
ja 0x4e87c3
movq 0x20(%rsp), %rax
movq 0x30(%rsp), %rcx
subq %rcx, %rax
movq 0x58(%rsp), %rcx
movq 0x28(%rcx), %rcx
shlq %rcx
xorl %edx, %edx
divq %rcx
movq %rax, (%rsp)
movq 0x30(%rsp), %rax
movq 0x58(%rsp), %rcx
movq 0x28(%rcx), %rcx
imulq (%rsp), %rcx
addq %rcx, %rax
movq %rax, 0x28(%rsp)
movq 0x28(%rsp), %rsi
movq 0x48(%rsp), %rdx
movq 0x58(%rsp), %rax
movq 0x28(%rax), %rcx
leaq 0x50(%rsp), %rdi
callq 0x4e87e0
movl %eax, 0x1c(%rsp)
cmpl $0x0, 0x1c(%rsp)
jge 0x4e876f
movq 0x28(%rsp), %rax
movq 0x58(%rsp), %rcx
addq 0x28(%rcx), %rax
movq %rax, 0x30(%rsp)
movq 0x50(%rsp), %rax
movq %rax, 0x10(%rsp)
movq 0x50(%rsp), %rax
cmpq 0x8(%rsp), %rax
jbe 0x4e876d
movq 0x8(%rsp), %rax
movq %rax, 0x50(%rsp)
jmp 0x4e87be
cmpl $0x0, 0x1c(%rsp)
jle 0x4e87b0
movq 0x28(%rsp), %rax
movq 0x58(%rsp), %rdx
xorl %ecx, %ecx
subq 0x28(%rdx), %rcx
addq %rcx, %rax
movq %rax, 0x20(%rsp)
movq 0x50(%rsp), %rax
movq %rax, 0x8(%rsp)
movq 0x50(%rsp), %rax
cmpq 0x10(%rsp), %rax
jbe 0x4e87ae
movq 0x10(%rsp), %rax
movq %rax, 0x50(%rsp)
jmp 0x4e87bc
movq 0x28(%rsp), %rax
movq %rax, 0x60(%rsp)
jmp 0x4e87cc
jmp 0x4e87be
jmp 0x4e86c5
movq $0x0, 0x60(%rsp)
movq 0x60(%rsp), %rax
addq $0x68, %rsp
retq
nopw %cs:(%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/tyr-map.c
// Function: mymemcmp
static int mymemcmp(GtUword *offset,const GtUchar *s1,const GtUchar *s2,
                    GtUword len)
{
  GtUword idx;

  for (idx=*offset; idx<len; idx++)
  {
    if (s1[idx] < s2[idx])
    {
      *offset = idx;
      return -1;
    }
    if (s1[idx] > s2[idx])
    {
      *offset = idx;
      return 1;
    }
  }
  return 0;
}

// Assembly:
movq %rdi, -0x10(%rsp)
movq %rsi, -0x18(%rsp)
movq %rdx, -0x20(%rsp)
movq %rcx, -0x28(%rsp)
movq -0x10(%rsp), %rax
movq (%rax), %rax
movq %rax, -0x30(%rsp)
movq -0x30(%rsp), %rax
cmpq -0x28(%rsp), %rax
jae 0x4e8894
movq -0x18(%rsp), %rax
movq -0x30(%rsp), %rcx
movzbl (%rax,%rcx), %eax
movq -0x20(%rsp), %rcx
movq -0x30(%rsp), %rdx
movzbl (%rcx,%rdx), %ecx
cmpl %ecx, %eax
jge 0x4e8848
movq -0x30(%rsp), %rcx
movq -0x10(%rsp), %rax
movq %rcx, (%rax)
movl $0xffffffff, -0x4(%rsp) # imm = 0xFFFFFFFF
jmp 0x4e889c
movq -0x18(%rsp), %rax
movq -0x30(%rsp), %rcx
movzbl (%rax,%rcx), %eax
movq -0x20(%rsp), %rcx
movq -0x30(%rsp), %rdx
movzbl (%rcx,%rdx), %ecx
cmpl %ecx, %eax
jle 0x4e887f
movq -0x30(%rsp), %rcx
movq -0x10(%rsp), %rax
movq %rcx, (%rax)
movl $0x1, -0x4(%rsp)
jmp 0x4e889c
jmp 0x4e8881
movq -0x30(%rsp), %rax
addq $0x1, %rax
movq %rax, -0x30(%rsp)
jmp 0x4e8801
movl $0x0, -0x4(%rsp)
movl -0x4(%rsp), %eax
retq
nopw %cs:(%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/match/tyr-map.c
// Function: gt_determinetyrbckpfxlen
int gt_determinetyrbckpfxlen(unsigned int *prefixlength,
                          const Tyrindex *tyrindex,
                          const Definedunsignedint *callprefixlength,
                          GtError *err)
{
  gt_error_check(err);
  if (callprefixlength->defined)
  {
    unsigned int maxprefixlen
      = gt_whatisthemaximalprefixlength(tyrindex->alphasize,
                                     (GtUword) tyrindex->numofmers,
                                     0,true);
    if (maxprefixlen > (unsigned int) tyrindex->mersize)
    {
      maxprefixlen = (unsigned int) tyrindex->mersize;
    }
    if (gt_checkprefixlength(maxprefixlen,callprefixlength->valueunsignedint,
                          err) != 0)
    {
      return -1;
    }
    *prefixlength = callprefixlength->valueunsignedint;
  } else
  {
    unsigned int recommendedprefixlength
      = gt_recommendedprefixlength(tyrindex->alphasize,
                                   (GtUword) tyrindex->numofmers,
                                   GT_RECOMMENDED_MULTIPLIER_DEFAULT,
                                   true);
    if (recommendedprefixlength > (unsigned int) tyrindex->mersize)
    {
      recommendedprefixlength = (unsigned int) tyrindex->mersize;
    }
    *prefixlength = recommendedprefixlength;
  }
  return 0;
}

// Assembly:
subq $0x38, %rsp
movq %rdi, 0x28(%rsp)
movq %rsi, 0x20(%rsp)
movq %rdx, 0x18(%rsp)
movq %rcx, 0x10(%rsp)
cmpq $0x0, 0x10(%rsp)
je 0x4e8ad8
movq 0x10(%rsp), %rdi
callq 0xd8a60
testb $0x1, %al
jne 0x4e8aa0
jmp 0x4e8ad8
movq 0x1534f9(%rip), %rax    # 0x63bfa0
movq (%rax), %rdi
leaq 0x2d562(%rip), %rsi     # 0x516013
leaq 0x2d707(%rip), %rdx     # 0x5161bf
leaq 0xd2d47(%rip), %rcx     # 0x5bb806
leaq 0xd2b1b(%rip), %r8      # 0x5bb5e1
movl $0x199, %r9d            # imm = 0x199
movb $0x0, %al
callq 0x199f0
callq 0x19370
jmp 0x4e8ada
movq 0x18(%rsp), %rax
testb $0x1, (%rax)
je 0x4e8b59
movq 0x20(%rsp), %rax
movl 0x10(%rax), %edi
movq 0x20(%rsp), %rax
movq 0x18(%rax), %rsi
xorl %edx, %edx
movl $0x1, %ecx
callq 0x2b1450
movl %eax, 0xc(%rsp)
movl 0xc(%rsp), %eax
movq 0x20(%rsp), %rcx
movq 0x20(%rcx), %rcx
cmpl %ecx, %eax
jbe 0x4e8b23
movq 0x20(%rsp), %rax
movq 0x20(%rax), %rax
movl %eax, 0xc(%rsp)
movl 0xc(%rsp), %edi
movq 0x18(%rsp), %rax
movl 0x4(%rax), %esi
movq 0x10(%rsp), %rdx
callq 0x2b1580
cmpl $0x0, %eax
je 0x4e8b48
movl $0xffffffff, 0x34(%rsp) # imm = 0xFFFFFFFF
jmp 0x4e8bb1
movq 0x18(%rsp), %rax
movl 0x4(%rax), %ecx
movq 0x28(%rsp), %rax
movl %ecx, (%rax)
jmp 0x4e8ba9
movq 0x20(%rsp), %rax
movl 0x10(%rax), %edi
movq 0x20(%rsp), %rax
movq 0x18(%rax), %rsi
movsd 0x39be6(%rip), %xmm0    # 0x522758
movl $0x1, %edx
callq 0x2b12f0
movl %eax, 0x8(%rsp)
movl 0x8(%rsp), %eax
movq 0x20(%rsp), %rcx
movq 0x20(%rcx), %rcx
cmpl %ecx, %eax
jbe 0x4e8b9e
movq 0x20(%rsp), %rax
movq 0x20(%rax), %rax
movl %eax, 0x8(%rsp)
movl 0x8(%rsp), %ecx
movq 0x28(%rsp), %rax
movl %ecx, (%rax)
movl $0x0, 0x34(%rsp)
movl 0x34(%rsp), %eax
addq $0x38, %rsp
retq
nopw (%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/ltr/ltr_cluster_prepare_seq_visitor.c
// Function: gt_ltr_cluster_prepare_seq_visitor_free
void gt_ltr_cluster_prepare_seq_visitor_free(GtNodeVisitor *v)
{
  GtLTRClusterPrepareSeqVisitor *lcv;
  lcv = gt_ltr_cluster_prepare_seq_visitor_cast(v);
  gt_encseq_delete(lcv->src_encseq);
  gt_str_array_delete(lcv->feat_to_encseq_keys);
  gt_hashmap_delete(lcv->feat_to_encseq);
  gt_hashmap_delete(lcv->encseq_builders);
}

// Assembly:
subq $0x18, %rsp
movq %rdi, 0x10(%rsp)
callq 0x4e8c20
movq %rax, %rdi
movq 0x10(%rsp), %rsi
callq 0x1b2350
movq %rax, 0x8(%rsp)
movq 0x8(%rsp), %rax
movq 0x10(%rax), %rdi
callq 0xae070
movq 0x8(%rsp), %rax
movq 0x28(%rax), %rdi
callq 0x11fd20
movq 0x8(%rsp), %rax
movq 0x18(%rax), %rdi
callq 0xe1770
movq 0x8(%rsp), %rax
movq 0x20(%rax), %rdi
callq 0xe1770
addq $0x18, %rsp
retq
nopl (%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/ltr/ltr_cluster_prepare_seq_visitor.c
// Function: gt_ltr_cluster_prepare_seq_visitor_class
const GtNodeVisitorClass* gt_ltr_cluster_prepare_seq_visitor_class(void)
{
  static const GtNodeVisitorClass *nvc;
  gt_class_alloc_lock_enter();
  if (!nvc) {
    nvc = gt_node_visitor_class_new(sizeof(GtLTRClusterPrepareSeqVisitor),
                                gt_ltr_cluster_prepare_seq_visitor_free,
                                NULL,
                                gt_ltr_cluster_prepare_seq_visitor_feature_node,
                                NULL,
                                NULL,
                                NULL);
  }
  gt_class_alloc_lock_leave();
  return nvc;
}

// Assembly:
pushq %rax
callq 0x9f220
cmpq $0x0, 0x15aa42(%rip)    # 0x643670
jne 0x4e8c62
movl $0x30, %edi
leaq -0x7c(%rip), %rsi       # 0x4e8bc0
xorl %eax, %eax
movl %eax, %r9d
leaq 0x28(%rip), %rcx        # 0x4e8c70
movq %r9, %rdx
movq %r9, %r8
movq $0x0, (%rsp)
callq 0x1b2170
movq %rax, 0x15aa0e(%rip)    # 0x643670
callq 0x9f280
movq 0x15aa02(%rip), %rax    # 0x643670
popq %rcx
retq
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/ltr/ltr_cluster_prepare_seq_visitor.c
// Function: gt_ltr_cluster_prepare_seq_visitor_new
GtNodeVisitor* gt_ltr_cluster_prepare_seq_visitor_new(GtEncseq *encseq,
                                                      GT_UNUSED GtError *err)
{
  GtNodeVisitor *nv;
  GtLTRClusterPrepareSeqVisitor *lcv;
  nv = gt_node_visitor_create(gt_ltr_cluster_prepare_seq_visitor_class());
  lcv = gt_ltr_cluster_prepare_seq_visitor_cast(nv);
  gt_assert(lcv);
  lcv->src_encseq = gt_encseq_ref(encseq);
  lcv->feat_to_encseq = NULL;
  lcv->encseq_builders = gt_hashmap_new(GT_HASH_STRING, gt_free_func,
                                        (GtFree) gt_encseq_builder_delete);
  lcv->feat_to_encseq_keys = gt_str_array_new();
  return nv;
}

// Assembly:
subq $0x28, %rsp
movq %rdi, 0x20(%rsp)
movq %rsi, 0x18(%rsp)
callq 0x4e8c20
movq %rax, %rdi
callq 0x1b22c0
movq %rax, 0x10(%rsp)
callq 0x4e8c20
movq %rax, %rdi
movq 0x10(%rsp), %rsi
callq 0x1b2350
movq %rax, 0x8(%rsp)
cmpq $0x0, 0x8(%rsp)
jne 0x4e9417
movq 0x152bba(%rip), %rax    # 0x63bfa0
movq (%rax), %rdi
leaq 0x2cc23(%rip), %rsi     # 0x516013
leaq 0xd2428(%rip), %rdx     # 0x5bb81f
leaq 0xd2425(%rip), %rcx     # 0x5bb823
leaq 0xd2445(%rip), %r8      # 0x5bb84a
movl $0xd2, %r9d
movb $0x0, %al
callq 0x199f0
callq 0x19370
jmp 0x4e9419
movq 0x20(%rsp), %rdi
callq 0xaebc0
movq %rax, %rcx
movq 0x8(%rsp), %rax
movq %rcx, 0x10(%rax)
movq 0x8(%rsp), %rax
movq $0x0, 0x18(%rax)
movl $0x1, %edi
leaq -0x400a18(%rip), %rsi   # 0xe8a30
leaq -0x426aaf(%rip), %rdx   # 0xc29a0
callq 0xe0c40
movq %rax, %rcx
movq 0x8(%rsp), %rax
movq %rcx, 0x20(%rax)
callq 0x11f5c0
movq %rax, %rcx
movq 0x8(%rsp), %rax
movq %rcx, 0x28(%rax)
movq 0x10(%rsp), %rax
addq $0x28, %rsp
retq
nopl (%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/ltr/ltr_cluster_prepare_seq_visitor.c
// Function: gt_ltr_cluster_prepare_seq_visitor_get_encseqs
GtHashmap* gt_ltr_cluster_prepare_seq_visitor_get_encseqs(
                                              GtLTRClusterPrepareSeqVisitor *v)
{
  gt_assert(v && v->encseq_builders);
  gt_log_log("finishing encseqs");
  if (!v->feat_to_encseq) {
    gt_log_log("starting...");
    (void) gt_hashmap_foreach(v->encseq_builders,
                              gt_ltr_cluster_prepare_seq_finish_encseqs,
                              v,
                              NULL);
  }
  return gt_hashmap_ref(v->feat_to_encseq);
}

// Assembly:
pushq %rax
movq %rdi, (%rsp)
cmpq $0x0, (%rsp)
je 0x4e9677
movq (%rsp), %rax
cmpq $0x0, 0x20(%rax)
jne 0x4e96af
movq 0x152922(%rip), %rax    # 0x63bfa0
movq (%rax), %rdi
leaq 0x2c98b(%rip), %rsi     # 0x516013
leaq 0xd2262(%rip), %rdx     # 0x5bb8f1
leaq 0xd2273(%rip), %rcx     # 0x5bb909
leaq 0xd21ad(%rip), %r8      # 0x5bb84a
movl $0xf8, %r9d
movb $0x0, %al
callq 0x199f0
callq 0x19370
jmp 0x4e96b1
leaq 0xd2280(%rip), %rdi     # 0x5bb938
movb $0x0, %al
callq 0xe7740
movq (%rsp), %rax
cmpq $0x0, 0x18(%rax)
jne 0x4e96f4
leaq 0xd2279(%rip), %rdi     # 0x5bb94a
movb $0x0, %al
callq 0xe7740
movq (%rsp), %rax
movq 0x20(%rax), %rdi
movq (%rsp), %rdx
leaq -0x26b(%rip), %rsi      # 0x4e9480
xorl %eax, %eax
movl %eax, %ecx
callq 0xe11a0
movq (%rsp), %rax
movq 0x18(%rax), %rdi
callq 0xe0f10
popq %rcx
retq
nopw %cs:(%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/mgth/mg_codon.c
// Function: mg_codon2amino
char mg_codon2amino(char n0, char n1, char n2)
{
  static char aminos[] = "FFLLSSSSYY**CC*WLLLLPPPPHHQQRRRR"
    "IIIMTTTTNNKKSSRRVVVVAAAADDEEGGGGX";
  unsigned int code = 0;

  switch (n0)
  {
    case 'A':
    case 'a':
      code = A_CODE << 4;
      break;
    case 'C':
    case 'c':
      code = C_CODE << 4;
      break;
    case 'G':
    case 'g':
      code = G_CODE << 4;
      break;
    case 'T':
    case 't':
    case 'U':
    case 'u':
      code = T_CODE << 4;
      break;
    default:
      code = G_CODE << 4;
  }

  switch (n1)
  {
    case 'A':
    case 'a':
      code += A_CODE << 2;
      break;
    case 'C':
    case 'c':
      code += C_CODE << 2;
      break;
    case 'G':
    case 'g':
      code += G_CODE << 2;
      break;
    case 'T':
    case 't':
    case 'U':
    case 'u':
      /* code += T_CODE << 2; */
      break;
    default:
      code = G_CODE << 2;
  }

  switch (n2)
  {
    case 'A':
    case 'a':
    case 'R':
    case 'r':
      code += A_CODE;
      break;
    case 'C':
    case 'c':
      code += C_CODE;
      break;
    case 'G':
    case 'g':
      code += G_CODE;
      break;
    case 'T':
    case 't':
    case 'U':
    case 'u':
    case 'N':
    case 'n':
    case 'Y':
    case 'y':
      code += T_CODE;
      break;
    default:
      code += X_CODE;
  }

  return aminos[code];
}

// Assembly:
movb %dl, %al
movb %sil, %cl
movb %dil, %dl
movb %dl, -0x1(%rsp)
movb %cl, -0x2(%rsp)
movb %al, -0x3(%rsp)
movl $0x0, -0x8(%rsp)
movsbl -0x1(%rsp), %eax
addl $-0x41, %eax
movl %eax, %ecx
movq %rcx, -0x10(%rsp)
subl $0x34, %eax
ja 0x4e9d3d
movq -0x10(%rsp), %rax
leaq 0xd1dec(%rip), %rcx     # 0x5bbaf8
movslq (%rcx,%rax,4), %rax
addq %rcx, %rax
jmpq *%rax
movl $0x20, -0x8(%rsp)
jmp 0x4e9d45
movl $0x10, -0x8(%rsp)
jmp 0x4e9d45
movl $0x30, -0x8(%rsp)
jmp 0x4e9d45
movl $0x0, -0x8(%rsp)
jmp 0x4e9d45
movl $0x30, -0x8(%rsp)
movsbl -0x2(%rsp), %eax
addl $-0x41, %eax
movl %eax, %ecx
movq %rcx, -0x18(%rsp)
subl $0x34, %eax
ja 0x4e9d97
movq -0x18(%rsp), %rax
leaq 0xd1e67(%rip), %rcx     # 0x5bbbcc
movslq (%rcx,%rax,4), %rax
addq %rcx, %rax
jmpq *%rax
movl -0x8(%rsp), %eax
addl $0x8, %eax
movl %eax, -0x8(%rsp)
jmp 0x4e9d9f
movl -0x8(%rsp), %eax
addl $0x4, %eax
movl %eax, -0x8(%rsp)
jmp 0x4e9d9f
movl -0x8(%rsp), %eax
addl $0xc, %eax
movl %eax, -0x8(%rsp)
jmp 0x4e9d9f
jmp 0x4e9d9f
movl $0xc, -0x8(%rsp)
movsbl -0x3(%rsp), %eax
addl $-0x41, %eax
movl %eax, %ecx
movq %rcx, -0x20(%rsp)
subl $0x38, %eax
ja 0x4e9dfc
movq -0x20(%rsp), %rax
leaq 0xd1ee1(%rip), %rcx     # 0x5bbca0
movslq (%rcx,%rax,4), %rax
addq %rcx, %rax
jmpq *%rax
movl -0x8(%rsp), %eax
addl $0x2, %eax
movl %eax, -0x8(%rsp)
jmp 0x4e9e07
movl -0x8(%rsp), %eax
addl $0x1, %eax
movl %eax, -0x8(%rsp)
jmp 0x4e9e07
movl -0x8(%rsp), %eax
addl $0x3, %eax
movl %eax, -0x8(%rsp)
jmp 0x4e9e07
movl -0x8(%rsp), %eax
addl $0x0, %eax
movl %eax, -0x8(%rsp)
jmp 0x4e9e07
movl -0x8(%rsp), %eax
addl $0x4, %eax
movl %eax, -0x8(%rsp)
movl -0x8(%rsp), %eax
movl %eax, %ecx
leaq 0x157d5c(%rip), %rax    # 0x641b70
movb (%rax,%rcx), %al
retq
nopl (%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/mgth/mg_combinedscore.c
// Function: add_scores
static void add_scores(ParseStruct *parsestruct_ptr,
                       double *matrix_row,
                       GtUword *count_row_fct,
                       short current_row_fct,
                       GtUword hit_number,
                       GtUword position,
                       unsigned short k, double score)
{
  /* Wenn der Query-Leserahmen negativ ist, muessen die Combined-Scores
     von Rechts nach Links in die Combined-Score Matrix eingetragen werden
     - also ausgehend vom Query-to Wert */
  if (current_row_fct > 3)
  {
    matrix_row[POSITION(MATRIXSTRUCT(query_to), hit_number, -position, -k)]
      += score;
    count_row_fct[POSITION
                  (MATRIXSTRUCT(query_to), hit_number, -position, -k)] +=
      1;
  }
  else
  {
    matrix_row[POSITION(MATRIXSTRUCT(query_from), hit_number, position, k)]
      += score;
    count_row_fct[POSITION
                  (MATRIXSTRUCT(query_from), hit_number, position, k)] +=
      1;
  }
}

// Assembly:
subq $0x68, %rsp
movw %cx, %ax
movw 0x70(%rsp), %cx
movq %rdi, 0x60(%rsp)
movq %rsi, 0x58(%rsp)
movq %rdx, 0x50(%rsp)
movw %ax, 0x4e(%rsp)
movq %r8, 0x40(%rsp)
movq %r9, 0x38(%rsp)
movsd %xmm0, 0x30(%rsp)
movswl 0x4e(%rsp), %eax
cmpl $0x3, %eax
jle 0x4eb9cb
movsd 0x30(%rsp), %xmm0
movsd %xmm0, 0x18(%rsp)
movq 0x58(%rsp), %rax
movq %rax, 0x20(%rsp)
movq 0x60(%rsp), %rax
movq 0x118(%rax), %rdi
movq 0x40(%rsp), %rsi
callq 0x80b60
movsd 0x18(%rsp), %xmm0
movq %rax, %rcx
movq 0x20(%rsp), %rax
movq (%rcx), %rcx
xorl %edx, %edx
subq 0x38(%rsp), %rdx
addq %rdx, %rcx
movzwl 0x70(%rsp), %esi
xorl %edx, %edx
subl %esi, %edx
movslq %edx, %rdx
addq %rdx, %rcx
subq $0x1, %rcx
addsd (%rax,%rcx,8), %xmm0
movsd %xmm0, (%rax,%rcx,8)
movq 0x50(%rsp), %rax
movq %rax, 0x28(%rsp)
movq 0x60(%rsp), %rax
movq 0x118(%rax), %rdi
movq 0x40(%rsp), %rsi
callq 0x80b60
movq %rax, %rcx
movq 0x28(%rsp), %rax
movq (%rcx), %rcx
xorl %edx, %edx
subq 0x38(%rsp), %rdx
addq %rdx, %rcx
movzwl 0x70(%rsp), %esi
xorl %edx, %edx
subl %esi, %edx
movslq %edx, %rdx
addq %rdx, %rcx
subq $0x1, %rcx
movq (%rax,%rcx,8), %rdx
addq $0x1, %rdx
movq %rdx, (%rax,%rcx,8)
jmp 0x4eba69
movsd 0x30(%rsp), %xmm0
movsd %xmm0, (%rsp)
movq 0x58(%rsp), %rax
movq %rax, 0x8(%rsp)
movq 0x60(%rsp), %rax
movq 0x110(%rax), %rdi
movq 0x40(%rsp), %rsi
callq 0x80b60
movsd (%rsp), %xmm0
movq %rax, %rcx
movq 0x8(%rsp), %rax
movq (%rcx), %rcx
addq 0x38(%rsp), %rcx
movzwl 0x70(%rsp), %edx
addq %rdx, %rcx
subq $0x1, %rcx
addsd (%rax,%rcx,8), %xmm0
movsd %xmm0, (%rax,%rcx,8)
movq 0x50(%rsp), %rax
movq %rax, 0x10(%rsp)
movq 0x60(%rsp), %rax
movq 0x110(%rax), %rdi
movq 0x40(%rsp), %rsi
callq 0x80b60
movq %rax, %rcx
movq 0x10(%rsp), %rax
movq (%rcx), %rcx
addq 0x38(%rsp), %rcx
movzwl 0x70(%rsp), %edx
addq %rdx, %rcx
subq $0x1, %rcx
movq (%rax,%rcx,8), %rdx
addq $0x1, %rdx
movq %rdx, (%rax,%rcx,8)
addq $0x68, %rsp
retq
nop
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/mgth/mg_compute_gene_prediction.c
// Function: gt_check_stopcodon
short gt_check_stopcodon(char *contig_seq_ptrfct)
{
  unsigned short codon_status = 0;

  /* jeder if-Zweig ueberprueft entsprechend des
     Metagenomethreader-Arguments zur Verwendung alternativer Start-Codons
     auf Start-Codons */
  if (!strcmp(contig_seq_ptrfct, "tga")
      || !strcmp(contig_seq_ptrfct, "taa")
      || !strcmp(contig_seq_ptrfct, "tag")
      || !strcmp(contig_seq_ptrfct, "tar")
      || !strcmp(contig_seq_ptrfct, "uga")
      || !strcmp(contig_seq_ptrfct, "uaa")
      || !strcmp(contig_seq_ptrfct, "uag")
      || !strcmp(contig_seq_ptrfct, "uar"))
  {
    codon_status = 1;
  }

  return codon_status;
}

// Assembly:
subq $0x18, %rsp
movq %rdi, 0x10(%rsp)
movw $0x0, 0xe(%rsp)
movq 0x10(%rsp), %rdi
leaq 0x79658(%rip), %rsi     # 0x566e84
callq 0x19980
cmpl $0x0, %eax
je 0x4ed8d8
movq 0x10(%rsp), %rdi
leaq 0xcd241(%rip), %rsi     # 0x5baa87
callq 0x19980
cmpl $0x0, %eax
je 0x4ed8d8
movq 0x10(%rsp), %rdi
leaq 0xd68a3(%rip), %rsi     # 0x5c4103
callq 0x19980
cmpl $0x0, %eax
je 0x4ed8d8
movq 0x10(%rsp), %rdi
leaq 0x9eca0(%rip), %rsi     # 0x58c516
callq 0x19980
cmpl $0x0, %eax
je 0x4ed8d8
movq 0x10(%rsp), %rdi
leaq 0xce654(%rip), %rsi     # 0x5bbee0
callq 0x19980
cmpl $0x0, %eax
je 0x4ed8d8
movq 0x10(%rsp), %rdi
leaq 0xce642(%rip), %rsi     # 0x5bbee4
callq 0x19980
cmpl $0x0, %eax
je 0x4ed8d8
movq 0x10(%rsp), %rdi
leaq 0xce630(%rip), %rsi     # 0x5bbee8
callq 0x19980
cmpl $0x0, %eax
je 0x4ed8d8
movq 0x10(%rsp), %rdi
leaq 0xce61e(%rip), %rsi     # 0x5bbeec
callq 0x19980
cmpl $0x0, %eax
jne 0x4ed8df
movw $0x1, 0xe(%rsp)
movw 0xe(%rsp), %ax
addq $0x18, %rsp
retq
nopl (%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/mgth/mg_computepath.c
// Function: compute_precursors
static void compute_precursors(short current_frame,
                               GtUword position,
                               short *precursors_fct)
{
  short j = 0;

  /* Formel zur Bestimmung moeglicher Vorgaengerleserahmen anhand der
     aktuellen Position in der Query-DNA */
  j = (position)%NUM_PRECURSORS + 1;

  /* 3 Faelle zur Bestimmung der Vorgaengermenge */
  if (current_frame == 0)
  {
    precursors_fct[0] = j;
    precursors_fct[1] = 0;
    precursors_fct[2] = (-1)*j;
  }
  else if ((current_frame > 0 ? current_frame : (-1) * current_frame) == j)
  {
    precursors_fct[0] = current_frame;
    precursors_fct[1] = 0;
    precursors_fct[2] = (-1)*current_frame;
  }
  else
  {
    precursors_fct[0] = current_frame;
    precursors_fct[1] = UNDEFINED;
    precursors_fct[2] = UNDEFINED;
  }
}

// Assembly:
movw %di, %ax
movw %ax, -0x2(%rsp)
movq %rsi, -0x10(%rsp)
movq %rdx, -0x18(%rsp)
movw $0x0, -0x1a(%rsp)
movq -0x10(%rsp), %rax
movl $0x3, %ecx
xorl %edx, %edx
divq %rcx
addq $0x1, %rdx
movw %dx, %ax
movw %ax, -0x1a(%rsp)
movswl -0x2(%rsp), %eax
cmpl $0x0, %eax
jne 0x4eead2
movw -0x1a(%rsp), %cx
movq -0x18(%rsp), %rax
movw %cx, (%rax)
movq -0x18(%rsp), %rax
movw $0x0, 0x2(%rax)
movswl -0x1a(%rsp), %eax
imull $0xffffffff, %eax, %eax # imm = 0xFFFFFFFF
movw %ax, %cx
movq -0x18(%rsp), %rax
movw %cx, 0x4(%rax)
jmp 0x4eeb59
movswl -0x2(%rsp), %eax
cmpl $0x0, %eax
jle 0x4eeae7
movswl -0x2(%rsp), %eax
movl %eax, -0x20(%rsp)
jmp 0x4eeaf6
movswl -0x2(%rsp), %eax
imull $0xffffffff, %eax, %eax # imm = 0xFFFFFFFF
movl %eax, -0x20(%rsp)
movl -0x20(%rsp), %eax
movswl -0x1a(%rsp), %ecx
cmpl %ecx, %eax
jne 0x4eeb34
movw -0x2(%rsp), %cx
movq -0x18(%rsp), %rax
movw %cx, (%rax)
movq -0x18(%rsp), %rax
movw $0x0, 0x2(%rax)
movswl -0x2(%rsp), %eax
imull $0xffffffff, %eax, %eax # imm = 0xFFFFFFFF
movw %ax, %cx
movq -0x18(%rsp), %rax
movw %cx, 0x4(%rax)
jmp 0x4eeb57
movw -0x2(%rsp), %cx
movq -0x18(%rsp), %rax
movw %cx, (%rax)
movq -0x18(%rsp), %rax
movw $0x9, 0x2(%rax)
movq -0x18(%rsp), %rax
movw $0x9, 0x4(%rax)
jmp 0x4eeb59
retq
nopw (%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/annotationsketch/canvas_cairo_context.c
// Function: gt_canvas_cairo_context_class
const GtCanvasClass* gt_canvas_cairo_context_class(void)
{
  static const GtCanvasClass *canvas_class = NULL;
  gt_class_alloc_lock_enter();
  if (!canvas_class) {
    canvas_class = gt_canvas_class_new(sizeof (GtCanvasCairoContext),
                                       gt_canvas_cairo_visit_layout_pre,
                                       gt_canvas_cairo_visit_layout_post,
                                       gt_canvas_cairo_visit_track_pre,
                                       gt_canvas_cairo_visit_track_post,
                                       gt_canvas_cairo_visit_line_pre,
                                       gt_canvas_cairo_visit_line_post,
                                       gt_canvas_cairo_visit_block,
                                       gt_canvas_cairo_visit_element,
                                       gt_canvas_cairo_visit_custom_track,
                                       gt_canvas_cairo_draw_ruler,
                                       NULL);
  }
  gt_class_alloc_lock_leave();
  return canvas_class;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %rbx
subq $0x38, %rsp
callq 0x9f220
cmpq $0x0, 0x154b01(%rip)    # 0x643678
jne 0x4eebf3
movl $0x18, %edi
leaq 0x1e87b(%rip), %rsi     # 0x50d400
leaq 0x1e974(%rip), %rdx     # 0x50d500
leaq 0x1e98d(%rip), %rcx     # 0x50d520
leaq 0x1eec6(%rip), %r8      # 0x50da60
leaq 0x1ef8f(%rip), %r9      # 0x50db30
leaq 0x1f208(%rip), %r14     # 0x50ddb0
leaq 0x1f351(%rip), %rbx     # 0x50df00
leaq 0x200ba(%rip), %r11     # 0x50ec70
leaq 0x214c3(%rip), %r10     # 0x510080
leaq 0x2192c(%rip), %rax     # 0x5104f0
xorl %ebp, %ebp
movq %r14, (%rsp)
movq %rbx, 0x8(%rsp)
movq %r11, 0x10(%rsp)
movq %r10, 0x18(%rsp)
movq %rax, 0x20(%rsp)
movq $0x0, 0x28(%rsp)
callq 0x31f110
movq %rax, 0x154a85(%rip)    # 0x643678
callq 0x9f280
movq 0x154a79(%rip), %rax    # 0x643678
addq $0x38, %rsp
popq %rbx
popq %r14
popq %r15
popq %rbp
retq
nopw (%rax,%rax)
// File: /workspace/github_c_makefile_star2_O0/genometools[P]genometools/src/annotationsketch/custom_track_gc_content.c
// Function: gt_custom_track_gc_content_class
const GtCustomTrackClass* gt_custom_track_gc_content_class(void)
{
  static const GtCustomTrackClass *ctc = NULL;
  gt_class_alloc_lock_enter();
  if (!ctc)
  {
    ctc = gt_custom_track_class_new(sizeof (GtCustomTrackGcContent),
                                    gt_custom_track_gc_content_sketch,
                                    gt_custom_track_gc_content_get_height,
                                    gt_custom_track_gc_content_get_title,
                                    gt_custom_track_gc_content_delete);
  }
  gt_class_alloc_lock_leave();
  return ctc;
}

// Assembly:
pushq %rax
callq 0x9f220
cmpq $0x0, 0x152fda(%rip)    # 0x643688
jne 0x4f06dd
movl $0x48, %edi
leaq -0xa3c(%rip), %rsi      # 0x4efc80
leaq 0x1cd(%rip), %rdx       # 0x4f0890
leaq 0x1f6(%rip), %rcx       # 0x4f08c0
leaq 0x22f(%rip), %r8        # 0x4f0900
callq 0x4ef770
movq %rax, 0x152fab(%rip)    # 0x643688
callq 0x9f280
movq 0x152f9f(%rip), %rax    # 0x643688
popq %rcx
retq
nopl (%rax,%rax)