LLM4Binary/decompile-bench-makefile huggingface dataset:
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_check_final
bool gt_querymatch_check_final(double *evalue_ptr,
                               double *bit_score_ptr,
                               const GtKarlinAltschulStat *karlin_altschul_stat,
                               const GtQuerymatch *querymatch,
                               GtUword userdefinedleastlength,
                               GtUword errorpercentage,
                               double evalue_threshold)
{
  GtUword aligned_len;

  if (!gt_querymatch_ordered(querymatch))
  {
#ifdef SKDEBUG
    fprintf(querymatch->fp, "# !gt_querymatch_ordered => reject\n");
#endif
    return false;
  }
  aligned_len = gt_querymatch_aligned_len(querymatch);
  return gt_querymatch_check_final_generic(
                               evalue_ptr,
                               bit_score_ptr,
                               karlin_altschul_stat,
                               querymatch->query_seqlen,
                               aligned_len,
                               querymatch->distance,
                               querymatch->mismatches,
                               userdefinedleastlength,
                               errorpercentage,
                               evalue_threshold,
                               querymatch->fp);
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
pushq %rax
movsd %xmm0, (%rsp)
movq %r9, %r15
movq %r8, %r14
movq %rcx, %rbx
movq %rdx, %r12
movq %rsi, %r13
movq %rdi, %rbp
movq %rcx, %rdi
callq 0x16afb9
testb %al, %al
je 0x16afa8
movq 0x40(%rbx), %r8
movq 0x48(%rbx), %rcx
addq 0x10(%rbx), %r8
movq 0x70(%rbx), %r9
subq $0x8, %rsp
movq %rbp, %rdi
movq %r13, %rsi
movq %r12, %rdx
movsd 0x8(%rsp), %xmm0
pushq %r15
pushq %r14
pushq 0x78(%rbx)
callq 0x16acf1
addq $0x28, %rsp
jmp 0x16afae
xorl %eax, %eax
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_ordered
static bool gt_querymatch_ordered(const GtQuerymatch *querymatch)
{
  return (!querymatch->selfmatch ||
          querymatch->dbseqnum < querymatch->queryseqnum ||
          (querymatch->dbseqnum == querymatch->queryseqnum &&
           (querymatch->dbstart_relative <
             (GT_ISDIRREVERSE(querymatch->query_readmode)
                ? (querymatch->querystart_fwdstrand + 1)
                : querymatch->querystart)))) ? true : false;
}

// Assembly:
movb $0x1, %al
cmpb $0x1, 0x8c(%rdi)
jne 0x16afef
movq (%rdi), %rcx
movq 0x28(%rdi), %rdx
cmpq %rdx, %rcx
jb 0x16afef
jne 0x16afed
movq 0x8(%rdi), %rax
movl 0x88(%rdi), %ecx
orl $0x2, %ecx
cmpl $0x3, %ecx
jne 0x16aff0
movq 0x38(%rdi), %rcx
incq %rcx
jmp 0x16aff4
xorl %eax, %eax
retq
movq 0x30(%rdi), %rcx
cmpq %rcx, %rax
setb %al
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_table_sort
void gt_querymatch_table_sort(GtArrayGtQuerymatch *querymatch_table,
                              bool ascending)
{
  if (querymatch_table->nextfreeGtQuerymatch >= 2)
  {
    qsort(querymatch_table->spaceGtQuerymatch,
          querymatch_table->nextfreeGtQuerymatch,
          sizeof *querymatch_table->spaceGtQuerymatch,
          ascending ? gt_querymatch_compare_ascending
                    : gt_querymatch_compare_descending);
  }
}

// Assembly:
movl %esi, %eax
movq 0x10(%rdi), %rsi
cmpq $0x2, %rsi
jb 0x16bb6f
movq (%rdi), %rdi
leaq 0x18(%rip), %rdx        # 0x16bb70
leaq 0x7c(%rip), %rcx        # 0x16bbdb
testb %al, %al
cmovneq %rdx, %rcx
movl $0xb8, %edx
jmp 0x17ed0
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_compare_ascending
static int gt_querymatch_compare_ascending(const void *va,const void *vb)
{
  const GtQuerymatch *a = (const GtQuerymatch *) va;
  const GtQuerymatch *b = (const GtQuerymatch *) vb;

  gt_assert(a != NULL && b != NULL);
  if (a->queryseqnum < b->queryseqnum ||
       (a->queryseqnum == b->queryseqnum &&
        a->querystart_fwdstrand + gt_querymatch_querylen(a) <=
        b->querystart_fwdstrand + gt_querymatch_querylen(b)))
  {
    return -1;
  }
  return 1;
}

// Assembly:
testq %rdi, %rdi
je 0x16bba2
testq %rsi, %rsi
je 0x16bba2
movq 0x28(%rsi), %rcx
pushq $-0x1
popq %rax
cmpq %rcx, 0x28(%rdi)
jb 0x16bba1
jne 0x16bb9e
movq 0x40(%rdi), %rcx
addq 0x38(%rdi), %rcx
movq 0x40(%rsi), %rdx
addq 0x38(%rsi), %rdx
cmpq %rdx, %rcx
jbe 0x16bba1
pushq $0x1
popq %rax
retq
pushq %rax
movq 0x2cc3be(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x17945f(%rip), %rsi    # 0x2e5013
leaq 0x1ae79b(%rip), %rdx    # 0x31a356
leaq 0x1e0589(%rip), %rcx    # 0x34c14b
leaq 0x1dfecf(%rip), %r8     # 0x34ba98
movl $0x49f, %r9d            # imm = 0x49F
xorl %eax, %eax
callq 0x17a50
callq 0x17390
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_compare_descending
static int gt_querymatch_compare_descending(const void *va,const void *vb)
{
  const GtQuerymatch *a = (const GtQuerymatch *) va;
  const GtQuerymatch *b = (const GtQuerymatch *) vb;

  gt_assert(a != NULL && b != NULL);
  if (a->queryseqnum < b->queryseqnum ||
       (a->queryseqnum == b->queryseqnum &&
        a->querystart_fwdstrand + gt_querymatch_querylen(a) <=
        b->querystart_fwdstrand + gt_querymatch_querylen(b)))
  {
    return 1;
  }
  return -1;
}

// Assembly:
testq %rdi, %rdi
je 0x16bc0d
testq %rsi, %rsi
je 0x16bc0d
movq 0x28(%rsi), %rcx
pushq $0x1
popq %rax
cmpq %rcx, 0x28(%rdi)
jb 0x16bc0c
jne 0x16bc09
movq 0x40(%rdi), %rcx
addq 0x38(%rdi), %rcx
movq 0x40(%rsi), %rdx
addq 0x38(%rsi), %rdx
cmpq %rdx, %rcx
jbe 0x16bc0c
pushq $-0x1
popq %rax
retq
pushq %rax
movq 0x2cc353(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x1793f4(%rip), %rsi    # 0x2e5013
leaq 0x1ae730(%rip), %rdx    # 0x31a356
leaq 0x1e053e(%rip), %rcx    # 0x34c16b
leaq 0x1dfe64(%rip), %r8     # 0x34ba98
movl $0x4af, %r9d            # imm = 0x4AF
xorl %eax, %eax
callq 0x17a50
callq 0x17390
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_extract_sequence_pair
void gt_querymatch_extract_sequence_pair(GtSequencepairbuffer *seqpairbuf,
                                         const GtEncseq *db_encseq,
                                         const GtEncseq *query_encseq,
                                         const GtQuerymatch *querymatch)
{
  GtReadmode query_readmode = gt_querymatch_query_readmode(querymatch);
  const GtUword dblen = gt_querymatch_dblen(querymatch),
                querylen = gt_querymatch_querylen(querymatch),
                apos_ab = gt_querymatch_dbstart(querymatch),
                bpos_ab = querymatch->query_seqstart +
                          querymatch->querystart_fwdstrand;

  if (dblen >= seqpairbuf->a_allocated)
  {
    seqpairbuf->a_sequence = gt_realloc(seqpairbuf->a_sequence,
                                        sizeof *seqpairbuf->a_sequence * dblen);
    seqpairbuf->a_allocated = dblen;
  }
  if (querylen >= seqpairbuf->b_allocated)
  {
    seqpairbuf->b_sequence = gt_realloc(seqpairbuf->b_sequence,
                                        sizeof *seqpairbuf->b_sequence *
                                        querylen);
    seqpairbuf->b_allocated = querylen;
  }
  gt_encseq_extract_encoded(db_encseq, seqpairbuf->a_sequence, apos_ab,
                            apos_ab + dblen - 1);
  gt_encseq_extract_encoded(query_encseq, seqpairbuf->b_sequence, bpos_ab,
                            bpos_ab + querylen - 1);
  if (query_readmode == GT_READMODE_REVCOMPL)
  {
    gt_inplace_reverse_complement(seqpairbuf->b_sequence,querylen);
  }
  seqpairbuf->a_len = dblen;
  seqpairbuf->b_len = querylen;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x18, %rsp
movq %rdx, 0x10(%rsp)
movq %rsi, %rbp
movq %rdi, %rbx
movl 0x88(%rcx), %eax
movl %eax, 0xc(%rsp)
movq 0x8(%rcx), %r12
movq 0x10(%rcx), %r14
movq 0x40(%rcx), %r15
addq 0x20(%rcx), %r12
movq 0x38(%rcx), %r13
addq 0x50(%rcx), %r13
cmpq 0x10(%rdi), %r14
jb 0x16bcee
movq (%rbx), %rdi
leaq 0x1dfdbe(%rip), %rdx    # 0x34ba98
movq %r14, %rsi
movl $0x4dd, %ecx            # imm = 0x4DD
callq 0x93472
movq %rax, (%rbx)
movq %r14, 0x10(%rbx)
cmpq 0x18(%rbx), %r15
jb 0x16bd14
movq 0x8(%rbx), %rdi
leaq 0x1dfd99(%rip), %rdx    # 0x34ba98
movq %r15, %rsi
movl $0x4e4, %ecx            # imm = 0x4E4
callq 0x93472
movq %rax, 0x8(%rbx)
movq %r15, 0x18(%rbx)
movq (%rbx), %rsi
leaq (%r14,%r12), %rcx
decq %rcx
movq %rbp, %rdi
movq %r12, %rdx
callq 0x721ca
movq 0x8(%rbx), %rsi
leaq (%r15,%r13), %rcx
decq %rcx
movq 0x10(%rsp), %rdi
movq %r13, %rdx
callq 0x721ca
cmpl $0x3, 0xc(%rsp)
jne 0x16bd54
movq 0x8(%rbx), %rdi
movq %r15, %rsi
callq 0x18dc7c
movq %r14, 0x20(%rbx)
movq %r15, 0x28(%rbx)
addq $0x18, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/randomcodes-correct.c
// Function: gt_randomcodes_correct_process_bucket
int gt_randomcodes_correct_process_bucket(void *data,
    const GtUword *bucketofsuffixes, const GtSeqnumrelpos *snrp,
    const uint16_t *lcptab_bucket, GtUword numberofsuffixes,
    GT_UNUSED unsigned int sortingdepth, GT_UNUSED GtError *err)
{
  GtUword itvstart, next_itvstart;
  unsigned int lcpvalue;
  bool haserr = false;
  GtRandomcodesCorrectData *cdata = data;

  for (itvstart = 0, next_itvstart = 1UL; next_itvstart < numberofsuffixes;
      next_itvstart++)
  {
    lcpvalue = (unsigned int) lcptab_bucket[next_itvstart];
    if (lcpvalue < cdata->k)
    {
      gt_randomcodes_correct_process_kmer_itv(bucketofsuffixes + itvstart,
          next_itvstart - itvstart, data);
      itvstart = next_itvstart;
      if (lcpvalue < cdata->k - 1)
      {
        gt_randomcodes_correct_process_kmergroup_end(snrp, data);
      }
    }
  }
  gt_randomcodes_correct_process_kmer_itv(bucketofsuffixes + itvstart,
      numberofsuffixes - itvstart, data);
  gt_randomcodes_correct_process_kmergroup_end(snrp, data);
  return haserr ? -1 : 0;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
pushq %rax
movq %r8, %r15
movq %rcx, %r12
movq %rdx, (%rsp)
movq %rsi, %r13
movq %rdi, %r14
pushq $0x1
popq %rbp
xorl %eax, %eax
cmpq %r15, %rbp
jae 0x16c146
movzwl (%r12,%rbp,2), %ebx
cmpl %ebx, 0x20(%r14)
jbe 0x16c141
leaq (,%rax,8), %rdi
addq %r13, %rdi
movq %rbp, %rsi
subq %rax, %rsi
movq %r14, %rdx
callq 0x16c17c
movl 0x20(%r14), %ecx
decl %ecx
movq %rbp, %rax
cmpl %ebx, %ecx
jbe 0x16c141
movq (%rsp), %rdi
movq %r14, %rsi
callq 0x16c1e1
movq %rbp, %rax
incq %rbp
jmp 0x16c0fc
leaq (,%rax,8), %rdi
addq %r13, %rdi
subq %rax, %r15
movq %r15, %rsi
movq %r14, %rdx
callq 0x16c17c
movq (%rsp), %rdi
movq %r14, %rsi
callq 0x16c1e1
xorl %eax, %eax
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/randomcodes-correct.c
// Function: gt_randomcodes_correct_process_kmer_itv
static inline void gt_randomcodes_correct_process_kmer_itv(
    const GtUword *suffixes,
    GtUword nofsuffixes,
    GtRandomcodesCorrectData *cdata)
{
  unsigned int i, c = cdata->c;
  cdata->nofkmeritvs++;
  cdata->nofkmers += nofsuffixes;
  if (nofsuffixes < (GtUword)cdata->c)
  {
    cdata->alltrusted = false;
    c = (unsigned int)nofsuffixes;
  }
  for (i = 0; i < c; i++)
  {
    (cdata->kpositions + cdata->currentchar * cdata->c)[i] = suffixes[i];
  }
  cdata->count[cdata->currentchar] = (unsigned int)nofsuffixes;
  cdata->currentchar++;
}

// Assembly:
movl 0x24(%rdx), %eax
movdqu 0x50(%rdx), %xmm0
movq %rsi, %xmm1
movdqa 0x1ab2ff(%rip), %xmm2   # 0x317490
punpcklqdq %xmm1, %xmm2    # xmm2 = xmm2[0],xmm1[0]
paddq %xmm0, %xmm2
movdqu %xmm2, 0x50(%rdx)
movq %rax, %rcx
cmpq %rsi, %rax
jbe 0x16c1ad
movb $0x0, 0x45(%rdx)
movq %rsi, %rcx
movl 0x40(%rdx), %r8d
imull %r8d, %eax
shlq $0x3, %rax
xorl %r9d, %r9d
cmpq %r9, %rcx
je 0x16c1d5
movq (%rdi,%r9,8), %r10
movq 0x30(%rdx), %r11
addq %rax, %r11
movq %r10, (%r11,%r9,8)
incq %r9
jmp 0x16c1bc
movq 0x28(%rdx), %rax
movl %esi, (%rax,%r8,4)
incl 0x40(%rdx)
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/randomcodes-correct.c
// Function: gt_randomcodes_correct_data_reset
static inline void gt_randomcodes_correct_data_reset(
    GtRandomcodesCorrectData *data)
{
  unsigned int i;
  data->seprange = false;
  data->alltrusted = true;
  data->currentchar = 0;
  for (i = 0; i < data->alphasize; i++)
    data->count[i] = 0;
}

// Assembly:
movw $0x100, 0x44(%rdi)      # imm = 0x100
andl $0x0, 0x40(%rdi)
xorl %eax, %eax
movl 0x8(%rdi), %ecx
cmpq %rcx, %rax
jae 0x16c565
movq 0x28(%rdi), %rcx
andl $0x0, (%rcx,%rax,4)
incq %rax
jmp 0x16c550
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/randomcodes-correct.c
// Function: gt_randomcodes_correct_data_delete
void gt_randomcodes_correct_data_delete(GtRandomcodesCorrectData *cdata)
{
  if (cdata == NULL)
    return;
  if (cdata->outfile != NULL)
    gt_fa_fclose(cdata->outfile);
  gt_free(cdata->kpositions);
  gt_free(cdata->count);
  gt_free(cdata);
}

// Assembly:
testq %rdi, %rdi
je 0x16c5c0
pushq %r14
pushq %rbx
pushq %rax
movq %rdi, %rbx
movq 0x38(%rdi), %rdi
testq %rdi, %rdi
je 0x16c580
callq 0x8a4fd
movq 0x30(%rbx), %rdi
leaq 0x1dfc63(%rip), %r14    # 0x34c1ee
movq %r14, %rsi
movl $0xe8, %edx
callq 0x936f9
movq 0x28(%rbx), %rdi
movq %r14, %rsi
movl $0xe9, %edx
callq 0x936f9
movq %rbx, %rdi
movq %r14, %rsi
movl $0xea, %edx
addq $0x8, %rsp
popq %rbx
popq %r14
jmp 0x936f9
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/randomcodes-correct.c
// Function: gt_randomcodes_correct_data_collect_stats
void gt_randomcodes_correct_data_collect_stats(GtRandomcodesCorrectData *cdata,
    unsigned int threadnum, GtUword *nofkmergroups,
    GtUword *nofkmeritvs, GtUword *nofkmers,
    GtUword *nofcorrections)
{
  GT_RANDOMCODES_COLLECT_STAT(nofkmergroups);
  GT_RANDOMCODES_COLLECT_STAT(nofkmeritvs);
  GT_RANDOMCODES_COLLECT_STAT(nofkmers);
  GT_RANDOMCODES_COLLECT_STAT(nofcorrections);
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
pushq %rax
movq %r9, %rbx
movq %r8, %r15
movq %rcx, %r12
movq %rdx, %r13
movl %esi, %ebp
movq %rdi, %r14
movq 0x48(%rdi), %rdx
leaq 0x1dfc46(%rip), %rdi    # 0x34c22e
xorl %eax, %eax
callq 0x92a82
testq %r13, %r13
je 0x16c5fc
movq 0x48(%r14), %rax
addq %rax, (%r13)
movq 0x50(%r14), %rdx
leaq 0x1dfc44(%rip), %rdi    # 0x34c24b
movl %ebp, %esi
xorl %eax, %eax
callq 0x92a82
testq %r12, %r12
je 0x16c61d
movq 0x50(%r14), %rax
addq %rax, (%r12)
movq 0x58(%r14), %rdx
leaq 0x1dfc3e(%rip), %rdi    # 0x34c266
movl %ebp, %esi
xorl %eax, %eax
callq 0x92a82
testq %r15, %r15
je 0x16c63d
movq 0x58(%r14), %rax
addq %rax, (%r15)
movq 0x60(%r14), %rdx
leaq 0x1dfc36(%rip), %rdi    # 0x34c27e
movl %ebp, %esi
xorl %eax, %eax
callq 0x92a82
testq %rbx, %rbx
je 0x16c65d
movq 0x60(%r14), %rax
addq %rax, (%rbx)
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/randomcodes-find-seldom.c
// Function: gt_randomcodes_find_seldom_process_bucket
int gt_randomcodes_find_seldom_process_bucket(void *data,
    const GtUword *bucketofsuffixes, const GtSeqnumrelpos *snrp,
    const uint16_t *lcptab_bucket, GtUword numberofsuffixes,
    GT_UNUSED unsigned int sortingdepth, GT_UNUSED GtError *err)
{
  GtUword itvstart, next_itvstart;
  unsigned int lcpvalue;
  GtRandomcodesFindSeldomData *sdata = data;

  for (itvstart = 0, next_itvstart = 1UL; next_itvstart < numberofsuffixes;
      next_itvstart++)
  {
    lcpvalue = (unsigned int) lcptab_bucket[next_itvstart];
    if (lcpvalue < (unsigned int)sdata->k)
    {
      gt_randomcodes_find_seldom_process_kmer_itv(snrp,
          bucketofsuffixes + itvstart, next_itvstart - itvstart, data);
      itvstart = next_itvstart;
    }
  }
  gt_randomcodes_find_seldom_process_kmer_itv(snrp,
      bucketofsuffixes + itvstart, next_itvstart - itvstart, data);
  return 0;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
pushq %rax
movq %r8, %r12
movq %rcx, %r13
movq %rdx, %r14
movq %rsi, %rbp
movq %rdi, %rbx
pushq $0x1
popq %r15
xorl %eax, %eax
cmpq %r12, %r15
jae 0x16c6c0
movzwl (%r13,%r15,2), %ecx
cmpl 0x20(%rbx), %ecx
jae 0x16c6bb
leaq (,%rax,8), %rsi
addq %rbp, %rsi
movq %r15, %rdx
subq %rax, %rdx
movq %r14, %rdi
movq %rbx, %rcx
callq 0x16c6ed
movq %r15, %rax
incq %r15
jmp 0x16c68c
leaq (,%rax,8), %rsi
addq %rbp, %rsi
subq %rax, %r15
movq %r14, %rdi
movq %r15, %rdx
movq %rbx, %rcx
callq 0x16c6ed
xorl %eax, %eax
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/randomcodes-find-seldom.c
// Function: gt_randomcodes_find_seldom_process_kmer_itv
static inline void gt_randomcodes_find_seldom_process_kmer_itv(
    const GtSeqnumrelpos *snrp, const GtUword *suffixes,
    GtUword nofsuffixes, GtRandomcodesFindSeldomData *sdata)
{
  GtUword i, relpos, seqnum;
  if (nofsuffixes < sdata->c)
  {
    for (i = 0; i < nofsuffixes; i++)
    {
      relpos = gt_seqnumrelpos_decode_relpos(snrp, suffixes[i]);
      seqnum = gt_seqnumrelpos_decode_seqnum(snrp, suffixes[i]);
      if (seqnum >= sdata->nofreads)
        seqnum = sdata->mirror_nofseqs - seqnum - 1UL;
      if (gt_encseq_seqlength(sdata->encseq, seqnum) - relpos >= sdata->k)
      {
        GT_SETIBIT(sdata->seldom_reads, seqnum);
        sdata->nofseldomkmers++;
        /*
        gt_log_log("seldom "GT_WU"-mer, count="GT_WU", relpos="GT_WU
                   ",seqnum="GT_WU"", sdata->k, nofsuffixes, relpos,
                   seqnum);
         */
      }
    }
  }
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
pushq %rax
movq %rdx, (%rsp)
cmpq %rdx, 0x28(%rcx)
jbe 0x16c778
movq %rcx, %rbx
movq %rsi, %r15
movq %rdi, %r12
xorl %r14d, %r14d
cmpq %r14, (%rsp)
je 0x16c778
movq (%r15,%r14,8), %rsi
movq %r12, %rdi
callq 0x191ca6
movq %rax, %rbp
movq (%r15,%r14,8), %rsi
movq %r12, %rdi
callq 0x191c9c
movq %rax, %r13
cmpq 0x8(%rbx), %rax
jb 0x16c73f
notq %r13
addq 0x10(%rbx), %r13
movq (%rbx), %rdi
movq %r13, %rsi
callq 0x75173
subq %rbp, %rax
cmpq 0x20(%rbx), %rax
jb 0x16c773
movabsq $-0x8000000000000000, %rax # imm = 0x8000000000000000
movl %r13d, %ecx
shrq %cl, %rax
movq 0x18(%rbx), %rcx
shrq $0x6, %r13
orq %rax, (%rcx,%r13,8)
incq 0x30(%rbx)
incq %r14
jmp 0x16c70e
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/randomcodes-find-seldom.c
// Function: gt_randomcodes_find_seldom_data_new
GtRandomcodesFindSeldomData *gt_randomcodes_find_seldom_data_new(
    GtEncseq *encseq, unsigned int k, unsigned int c,
    GtBitsequence *seldom_reads)
{
  GtRandomcodesFindSeldomData *sdata = gt_malloc(sizeof *sdata);
  sdata->k = (GtUword)k;
  sdata->c = (GtUword)c;
  sdata->encseq = encseq;
  sdata->mirror_nofseqs = gt_encseq_num_of_sequences(encseq);
  sdata->nofreads = sdata->mirror_nofseqs;
  sdata->seldom_reads = seldom_reads;
  if (gt_encseq_is_mirrored(sdata->encseq))
    sdata->nofreads >>= 1;
  sdata->nofseldomkmers = 0;
  return sdata;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r12
pushq %rbx
movq %rcx, %r14
movl %edx, %ebp
movl %esi, %r15d
movq %rdi, %r12
leaq 0x1dfb58(%rip), %rsi    # 0x34c2f9
pushq $0x38
popq %rdi
pushq $0x58
popq %rdx
callq 0x93160
movq %rax, %rbx
movl %r15d, %eax
movq %rax, 0x20(%rbx)
movl %ebp, %eax
movq %rax, 0x28(%rbx)
movq %r12, (%rbx)
movq %r12, %rdi
callq 0x705a1
movq %rax, 0x10(%rbx)
movq %rax, 0x8(%rbx)
movq %r14, 0x18(%rbx)
movq (%rbx), %rdi
callq 0x81dea
testb %al, %al
je 0x16c7e3
shrq 0x8(%rbx)
andq $0x0, 0x30(%rbx)
movq %rbx, %rax
popq %rbx
popq %r12
popq %r14
popq %r15
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/randomcodes.c
// Function: gt_randomcodes_delete_before_end
static void gt_randomcodes_delete_before_end(GtRandomcodesinfo *fci)
{
  if (fci->binsearchcache.spaceGtIndexwithcodeRC != NULL)
  {
    GT_FCI_SUBTRACTWORKSPACE(fci->fcsl, "binsearchcache");
    GT_FREEARRAY(&fci->binsearchcache, GtIndexwithcodeRC);
  }
  if (fci->radixsort_codepos != NULL)
  {
    gt_radixsort_delete(fci->radixsort_codepos);
    GT_FCI_SUBTRACTWORKSPACE(fci->fcsl, "radixsort_codepos");
    fci->radixsort_codepos = NULL;
  }
}

// Assembly:
pushq %rbx
subq $0x10, %rsp
movq %rdi, %rbx
cmpq $0x0, 0x48(%rdi)
je 0x171409
movq 0xa8(%rbx), %rdi
andq $0x0, (%rsp)
leaq 0x1db021(%rip), %rdx    # 0x34c3ed
leaq 0x1db4bc(%rip), %r8     # 0x34c88f
pushq $0x1
popq %r9
movl $0x31f, %esi            # imm = 0x31F
xorl %ecx, %ecx
callq 0x2b613a
movq 0x48(%rbx), %rdi
testq %rdi, %rdi
je 0x171409
leaq 0x1daffa(%rip), %rsi    # 0x34c3ed
movl $0x320, %edx            # imm = 0x320
callq 0x936f9
andq $0x0, 0x48(%rbx)
xorps %xmm0, %xmm0
movups %xmm0, 0x58(%rbx)
movq 0x80(%rbx), %rdi
testq %rdi, %rdi
je 0x17144c
callq 0xa0545
movq 0xa8(%rbx), %rdi
andq $0x0, (%rsp)
leaq 0x1dafc0(%rip), %rdx    # 0x34c3ed
leaq 0x1d4aae(%rip), %r8     # 0x345ee2
pushq $0x1
popq %r9
movl $0x325, %esi            # imm = 0x325
xorl %ecx, %ecx
callq 0x2b613a
andq $0x0, 0x80(%rbx)
addq $0x10, %rsp
popq %rbx
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/randomcodes.c
// Function: gt_randomcodes_thread_caller_sortremaining
static void *gt_randomcodes_thread_caller_sortremaining(void *data)
{
  GtRandomcodesSortRemainingThreadinfo *threadinfo =
    (GtRandomcodesSortRemainingThreadinfo *) data;

  if (gt_randomcodes_sortremaining(threadinfo->srsw,
                                  threadinfo->encseq,
                                  threadinfo->readmode,
                                  threadinfo->spmsuftab,
                                  threadinfo->snrp,
                                  threadinfo->rct,
                                  threadinfo->allrandomcodes,
                                  threadinfo->minindex,
                                  threadinfo->maxindex,
                                  threadinfo->sumofwidth,
                                  threadinfo->sortingdepth,
                                  threadinfo->bucketkeysize,
                                  threadinfo->itvprocess,
                                  threadinfo->itvprocess_end,
                                  threadinfo->itvprocessdata,
                                  threadinfo->withsuftabcheck,
                                  threadinfo->err) != 0)
  {
    gt_assert(false);
  }
  return NULL;
}

// Assembly:
pushq %rbp
pushq %rbx
subq $0x58, %rsp
movq (%rdi), %rax
movq 0x8(%rdi), %rsi
movl 0x10(%rdi), %edx
movq 0x18(%rdi), %rcx
movq 0x20(%rdi), %r8
movq 0x28(%rdi), %r9
movups 0x30(%rdi), %xmm0
movups 0x40(%rdi), %xmm1
movl 0x50(%rdi), %r10d
movl 0x54(%rdi), %r11d
movups 0x60(%rdi), %xmm2
movq 0x70(%rdi), %rbx
movzbl 0x58(%rdi), %ebp
movq 0x78(%rdi), %rdi
movq %rdi, 0x50(%rsp)
movl %ebp, 0x48(%rsp)
movq %rbx, 0x40(%rsp)
movups %xmm2, 0x30(%rsp)
movl %r11d, 0x28(%rsp)
movl %r10d, 0x20(%rsp)
movups %xmm1, 0x10(%rsp)
movups %xmm0, (%rsp)
movq %rax, %rdi
callq 0x171912
testl %eax, %eax
jne 0x172049
xorl %eax, %eax
addq $0x58, %rsp
popq %rbx
popq %rbp
retq
movq 0x2c5f18(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x172fb9(%rip), %rsi    # 0x2e5013
leaq 0x1b498b(%rip), %rdx    # 0x3269ec
leaq 0x1dabee(%rip), %rcx    # 0x34cc56
leaq 0x1da37e(%rip), %r8     # 0x34c3ed
movl $0x2b6, %r9d            # imm = 0x2B6
xorl %eax, %eax
callq 0x17a50
callq 0x17390
nopl (%rax)
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-cntlist.c
// Function: gt_cntlist_write_bin_header
void gt_cntlist_write_bin_header(GtUword nofreads, FILE *file)
{
  gt_assert(file != NULL);
  gt_xfputc(GT_CNTLIST_BIN_HEADER, file);
  gt_xfputc((char)sizeof(GtUword), file);
  gt_xfwrite(&(nofreads), sizeof (GtUword), (size_t)1, file);
}

// Assembly:
pushq %rbx
subq $0x10, %rsp
movq %rdi, 0x8(%rsp)
testq %rsi, %rsi
je 0x1720c2
movq %rsi, %rbx
pushq $0x1
popq %rdi
callq 0xb2f2e
pushq $0x8
popq %rdi
movq %rbx, %rsi
callq 0xb2f2e
leaq 0x8(%rsp), %rdi
pushq $0x8
popq %rsi
pushq $0x1
popq %rdx
movq %rbx, %rcx
callq 0xb302c
addq $0x10, %rsp
popq %rbx
retq
movq 0x2c5e9f(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x172f40(%rip), %rsi    # 0x2e5013
leaq 0x1e5f5a(%rip), %rdx    # 0x358034
leaq 0x1dacc4(%rip), %rcx    # 0x34cda5
leaq 0x1dacd9(%rip), %r8     # 0x34cdc1
pushq $0x2b
popq %r9
xorl %eax, %eax
callq 0x17a50
callq 0x17390
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-cntlist.c
// Function: gt_cntlist_show
int gt_cntlist_show(GtBitsequence *cntlist, GtUword nofreads,
    const char *path, bool binary, GtError *err)
{
  FILE *file;
  gt_assert(cntlist != NULL);
  if (path == NULL)
    file = stdout;
  else
  {
    file = gt_fa_fopen(path, binary ? "wb" : "w", err);
    if (file == NULL)
      return -1;
  }
  gt_assert(file != NULL);
  (binary ? gt_cntlist_show_bit : gt_cntlist_show_ascii)
    (cntlist, nofreads, file);
  if (path != NULL)
    gt_fa_fclose(file);
  return 0;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r12
pushq %rbx
testq %rdi, %rdi
je 0x172196
movl %ecx, %ebp
movq %rdx, %rbx
movq %rsi, %r14
movq %rdi, %r15
testq %rdx, %rdx
je 0x17214d
leaq 0x1839d1(%rip), %rax    # 0x2f5af1
leaq 0x1c17e7(%rip), %rsi    # 0x33390e
testb %bpl, %bpl
cmovneq %rax, %rsi
leaq 0x1dac8c(%rip), %rdx    # 0x34cdc1
pushq $0x45
popq %rcx
movq %rbx, %rdi
callq 0x8a156
movq %rax, %r12
testq %rax, %rax
jne 0x17215c
pushq $-0x1
popq %rbp
jmp 0x17218b
movq 0x2c5d5c(%rip), %rax    # 0x437eb0
movq (%rax), %r12
testq %r12, %r12
je 0x1721c0
leaq 0x93(%rip), %rax        # 0x1721f6
leaq 0x144(%rip), %rcx       # 0x1722ae
testb %bpl, %bpl
cmovneq %rax, %rcx
movq %r15, %rdi
movq %r14, %rsi
movq %r12, %rdx
callq *%rcx
xorl %ebp, %ebp
testq %rbx, %rbx
je 0x17218b
movq %r12, %rdi
callq 0x8a4fd
movl %ebp, %eax
popq %rbx
popq %r12
popq %r14
popq %r15
popq %rbp
retq
movq 0x2c5dcb(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x172e6c(%rip), %rsi    # 0x2e5013
leaq 0x1daf71(%rip), %rdx    # 0x34d11f
leaq 0x1dac24(%rip), %rcx    # 0x34cdd9
leaq 0x1dac05(%rip), %r8     # 0x34cdc1
pushq $0x40
jmp 0x1721e8
movq 0x2c5da1(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x172e42(%rip), %rsi    # 0x2e5013
leaq 0x1e5e5c(%rip), %rdx    # 0x358034
leaq 0x1dabfa(%rip), %rcx    # 0x34cdd9
leaq 0x1dabdb(%rip), %r8     # 0x34cdc1
pushq $0x49
popq %r9
xorl %eax, %eax
callq 0x17a50
callq 0x17390
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-cntlist.c
// Function: gt_cntlist_show_bit
static inline void gt_cntlist_show_bit(GtBitsequence *cntlist,
    GtUword nofreads, FILE *file)
{
  gt_assert(file != NULL);
  gt_xfputc(GT_CNTLIST_BIT_HEADER, file);
  gt_xfputc((char)sizeof(GtUword), file);
  gt_xfwrite(&(nofreads), sizeof (GtUword), (size_t)1, file);
  gt_xfwrite(cntlist, sizeof (GtBitsequence), GT_NUMOFINTSFORBITS(nofreads),
      file);
}

// Assembly:
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x10, %rsp
movq %rsi, 0x8(%rsp)
testq %rdx, %rdx
je 0x172278
movq %rdx, %rbx
movq %rdi, %r14
xorl %edi, %edi
movq %rdx, %rsi
callq 0xb2f2e
pushq $0x8
popq %rdi
movq %rbx, %rsi
callq 0xb2f2e
leaq 0x8(%rsp), %r15
pushq $0x8
popq %r12
pushq $0x1
popq %r13
movq %r15, %rdi
movq %r12, %rsi
movq %r13, %rdx
movq %rbx, %rcx
callq 0xb302c
movq (%r15), %rax
leaq -0x1(%rax), %rdx
shrq $0x6, %rdx
incq %rdx
cmpq $0x40, %rax
cmovbq %r13, %rdx
movq %r14, %rdi
movq %r12, %rsi
movq %rbx, %rcx
callq 0xb302c
addq $0x10, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
retq
movq 0x2c5ce9(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x172d8a(%rip), %rsi    # 0x2e5013
leaq 0x1e5da4(%rip), %rdx    # 0x358034
leaq 0x1dacf4(%rip), %rcx    # 0x34cf8b
leaq 0x1dab23(%rip), %r8     # 0x34cdc1
pushq $0x34
popq %r9
xorl %eax, %eax
callq 0x17a50
callq 0x17390
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-cntlist.c
// Function: gt_cntlist_show_ascii
static inline void gt_cntlist_show_ascii(GtBitsequence *cntlist,
    GtUword nofreads, FILE *file)
{
  GtUword i;
  gt_assert(file != NULL);
  fprintf(file, "[n: "GT_WU"]\n", nofreads);
  for (i = 0; i < nofreads; i++)
    if (GT_ISIBITSET(cntlist, i))
      fprintf(file, ""GT_WU"\n", i);
}

// Assembly:
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
testq %rdx, %rdx
je 0x17231e
movq %rdx, %rbx
movq %rsi, %r14
movq %rdi, %r15
leaq 0x1dace9(%rip), %rsi    # 0x34cfb5
movq %rdx, %rdi
movq %r14, %rdx
xorl %eax, %eax
callq 0x17a50
leaq 0x17e75b(%rip), %r12    # 0x2f0a3b
xorl %r13d, %r13d
cmpq %r13, %r14
je 0x172314
movq %r13, %rax
shrq $0x6, %rax
movq (%r15,%rax,8), %rax
movl %r13d, %ecx
shlq %cl, %rax
shrq $0x3f, %rax
je 0x17230f
movq %rbx, %rdi
movq %r12, %rsi
movq %r13, %rdx
xorl %eax, %eax
callq 0x17a50
incq %r13
jmp 0x1722e3
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
retq
movq 0x2c5c43(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x172ce4(%rip), %rsi    # 0x2e5013
leaq 0x1e5cfe(%rip), %rdx    # 0x358034
leaq 0x1dac62(%rip), %rcx    # 0x34cf9f
leaq 0x1daa7d(%rip), %r8     # 0x34cdc1
pushq $0x22
popq %r9
xorl %eax, %eax
callq 0x17a50
callq 0x17390
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-cntlist.c
// Function: gt_cntlist_count
GtUword gt_cntlist_count(const GtBitsequence *cntlist,
    GtUword nofreads)
{
  GtUword i, counter = 0;

  for (i = 0; i < nofreads; i++)
    if ((bool)GT_ISIBITSET(cntlist, i))
      counter++;
  return counter;
}

// Assembly:
xorl %ecx, %ecx
xorl %eax, %eax
cmpq %rcx, %rsi
je 0x172834
movq %rcx, %rdx
shrq $0x6, %rdx
movq (%rdi,%rdx,8), %rdx
shlq %cl, %rdx
shrq $0x3f, %rdx
addq %rdx, %rax
incq %rcx
jmp 0x172815
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-cntlist.c
// Function: gt_cntlist_xload
GtUword gt_cntlist_xload(const char *filename, GtBitsequence **cntlist,
    GtUword expected_nofreads)
{
  int retval;
  GtUword found_nofreads;
  GtError *err;

  if (!gt_file_exists(filename))
  {
    fprintf(stderr, "FATAL: error by loading contained reads list: "
        "file %s does not exist\n", filename);
    exit(EXIT_FAILURE);
  }

  err = gt_error_new();
  retval = gt_cntlist_parse(filename, true, cntlist, &found_nofreads, err);
  if (retval != 0)
  {
    fprintf(stderr, "FATAL: error by parsing contained reads list: %s\n",
        gt_error_get(err));
    exit(EXIT_FAILURE);
  }
  gt_error_delete(err);

  if (found_nofreads != expected_nofreads)
  {
    fprintf(stderr, "FATAL: error by parsing contained reads list: "
        "file specifies a wrong number of reads\nexpected "GT_WU", found "
        GT_WU"\n", expected_nofreads, found_nofreads);
    exit(EXIT_FAILURE);
  }

  return gt_cntlist_count(*cntlist, found_nofreads);
}

// Assembly:
pushq %r15
pushq %r14
pushq %r12
pushq %rbx
pushq %rax
movq %rdx, %rbx
movq %rsi, %r14
movq %rdi, %r15
callq 0x8da98
testb %al, %al
je 0x172897
callq 0x89da4
movq %rax, %r12
pushq $0x1
popq %rsi
movq %rsp, %rcx
movq %r15, %rdi
movq %r14, %rdx
movq %rax, %r8
callq 0x172354
testl %eax, %eax
jne 0x1728ad
movq %r12, %rdi
callq 0x8a045
movq (%rsp), %rcx
cmpq %rbx, %rcx
jne 0x1728d5
movq (%r14), %rdi
movq %rbx, %rsi
callq 0x172811
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r14
popq %r15
retq
movq 0x2c56ca(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x1da5fd(%rip), %rsi    # 0x34cea5
movq %r15, %rdx
jmp 0x1728cc
movq 0x2c56b4(%rip), %rax    # 0x437f68
movq (%rax), %rbx
movq %r12, %rdi
callq 0x89f41
leaq 0x1da625(%rip), %rsi    # 0x34ceeb
movq %rbx, %rdi
movq %rax, %rdx
xorl %eax, %eax
callq 0x17a50
jmp 0x1728f0
movq 0x2c568c(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x1da637(%rip), %rsi    # 0x34cf1d
movq %rbx, %rdx
xorl %eax, %eax
callq 0x17a50
pushq $0x1
popq %rdi
callq 0x178f0
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-cntlist.c
// Function: gt_cntlist_parse_bin_or_bit_header
static int gt_cntlist_parse_bin_or_bit_header(FILE *infp,
    GtUword *nofreads, GtError *err)
{
  int c;
  size_t n;

  gt_assert(infp != NULL && nofreads != NULL);
  gt_error_check(err);
  c = gt_xfgetc(infp);
  if (c == EOF)
  {
    gt_error_set(err, "contained reads list: unexpected end of file");
    return -1;
  }
  else if (c != (char)sizeof(GtUword))
  {
    gt_error_set(err, "contained reads list: %dbit version "
        "of GenomeTools required to use this list", c * CHAR_BIT);
    return -1;
  }
  n = fread(nofreads, sizeof (GtUword), (size_t)1, infp);
  if (n != (size_t)1 || *nofreads == 0)
  {
    gt_error_set(err, "contained reads list: unrecognized format");
    return -1;
  }
  return 0;
}

// Assembly:
pushq %r15
pushq %r14
pushq %rbx
testq %rsi, %rsi
je 0x172990
movq %rdx, %rbx
movq %rsi, %r14
movq %rdi, %r15
testq %rdx, %rdx
je 0x172924
movq %rbx, %rdi
callq 0x89eb7
testb %al, %al
jne 0x1729ba
movq %r15, %rdi
callq 0xb2e44
cmpl $0x8, %eax
je 0x17293f
cmpl $-0x1, %eax
jne 0x172971
leaq 0x1da705(%rip), %rsi    # 0x34d042
jmp 0x172965
pushq $0x8
popq %rsi
pushq $0x1
popq %rdx
movq %r14, %rdi
movq %r15, %rcx
callq 0x17ad0
cmpq $0x1, %rax
jne 0x17295e
xorl %eax, %eax
cmpq $0x0, (%r14)
jne 0x17298a
leaq 0x1da757(%rip), %rsi    # 0x34d0bc
movq %rbx, %rdi
xorl %eax, %eax
callq 0x89dbb
jmp 0x172987
shll $0x3, %eax
leaq 0x1da6f4(%rip), %rsi    # 0x34d06f
movq %rbx, %rdi
movl %eax, %edx
xorl %eax, %eax
callq 0x89dbb
pushq $-0x1
popq %rax
popq %rbx
popq %r14
popq %r15
retq
movq 0x2c55d1(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x172672(%rip), %rsi    # 0x2e5013
leaq 0x1da656(%rip), %rdx    # 0x34cffe
leaq 0x1da670(%rip), %rcx    # 0x34d01f
leaq 0x1da40b(%rip), %r8     # 0x34cdc1
pushq $0x57
jmp 0x1729e2
movq 0x2c55a7(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x172648(%rip), %rsi    # 0x2e5013
leaq 0x1727ed(%rip), %rdx    # 0x2e51bf
leaq 0x1da646(%rip), %rcx    # 0x34d01f
leaq 0x1da3e1(%rip), %r8     # 0x34cdc1
pushq $0x58
popq %r9
xorl %eax, %eax
callq 0x17a50
callq 0x17390
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-contfind-bottomup.c
// Function: processleafedge_rdjcv
static inline int processleafedge_rdjcv(GT_UNUSED bool firstsucc,
    GtUword fatherdepth,
    GT_UNUSED GtBUinfo_rdjcv *father, GtUword leafnumber,
    GtBUstate_rdjcv *state, GT_UNUSED GtError *err)
{
  GtUword seqnum;

  if (fatherdepth >= state->shortest)
  {
    if ((leafnumber == 0 ||
        GT_ISIBITSET(state->sspbittab, leafnumber-1)) &&
        GT_ISIBITSET(state->sspbittab, leafnumber + fatherdepth))
    {
      seqnum = gt_encseq_seqnum(state->encseq, leafnumber);
      processcontained(seqnum, state);
    }
  }
  if (state->show_progressbar) state->progress++;
  return 0;
}

// Assembly:
pushq %rbx
movq %rdx, %rbx
cmpq %rdi, (%rdx)
ja 0x172a46
movabsq $-0x8000000000000000, %rax # imm = 0x8000000000000000
movq 0x18(%rbx), %rdx
testq %rsi, %rsi
je 0x172a20
leaq -0x1(%rsi), %rcx
movq %rax, %r8
shrq %cl, %r8
shrq $0x6, %rcx
testq %r8, (%rdx,%rcx,8)
je 0x172a46
addq %rsi, %rdi
movl %edi, %ecx
shrq %cl, %rax
shrq $0x6, %rdi
testq %rax, (%rdx,%rdi,8)
je 0x172a46
movq 0x10(%rbx), %rdi
callq 0x74c9d
movq %rax, %rdi
movq %rbx, %rsi
callq 0x173f1c
cmpb $0x1, 0x38(%rbx)
jne 0x172a50
incq 0x40(%rbx)
popq %rbx
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-contfind-bottomup.c
// Function: processbranchingedge_rdjcv
static inline int processbranchingedge_rdjcv(GT_UNUSED bool firstsucc,
    GT_UNUSED GtUword fatherdepth,
    GT_UNUSED GtBUinfo_rdjcv *father, GtUword sondepth,
    GtUword sonwidth, GT_UNUSED GtBUinfo_rdjcv *son,
    GtBUstate_rdjcv *state, GT_UNUSED GtError *err)
{
  if (sondepth >= state->shortest)
  {
    /* keep one copy if several copies of a sequence are present
       and the sequence is not contained in any other */
    if (state->csize == sonwidth)
    {
      gt_assert(state->csize > 0);
      GT_UNSETIBIT(state->contained, state->cmin);
      state->counter--;
    }
  }
  state->csize = 0;
  return 0;
}

// Assembly:
cmpq %rdi, (%rdx)
ja 0x172a86
cmpq %rsi, 0x30(%rdx)
jne 0x172a86
testq %rsi, %rsi
je 0x172a8c
movq 0x20(%rdx), %rax
movq 0x28(%rdx), %rcx
movabsq $-0x8000000000000000, %rsi # imm = 0x8000000000000000
shrq %cl, %rsi
notq %rsi
shrq $0x6, %rcx
andq %rsi, (%rax,%rcx,8)
decq 0x58(%rdx)
andq $0x0, 0x30(%rdx)
retq
pushq %rax
movq 0x2c54d4(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x172575(%rip), %rsi    # 0x2e5013
leaq 0x1da7ac(%rip), %rdx    # 0x34d251
leaq 0x1da7b6(%rip), %rcx    # 0x34d262
leaq 0x1da76a(%rip), %r8     # 0x34d21d
movl $0xa4, %r9d
xorl %eax, %eax
callq 0x17a50
callq 0x17390
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-contfind-bottomup.c
// Function: processleafedge_rdjce
static inline int processleafedge_rdjce(GT_UNUSED bool firstsucc,
    GtUword fatherdepth,
    GT_UNUSED GtBUinfo_rdjce *father, GtUword leafnumber,
    GtBUstate_rdjce *state, GT_UNUSED GtError *err)
{
  GtUword seqnum;

  if (fatherdepth == state->shortest && (leafnumber % state->spacing) == 0)
  {
    seqnum = leafnumber / state->spacing;
    processcontained(seqnum, state);
  }
  if (state->show_progressbar) state->progress++;
  return 0;
}

// Assembly:
pushq %rbx
movq %rdx, %rbx
cmpq %rdi, (%rdx)
jne 0x172b38
movq %rsi, %rax
xorl %edx, %edx
divq 0x8(%rbx)
testq %rdx, %rdx
jne 0x172b38
movq %rax, %rdi
movq %rbx, %rsi
callq 0x173f1c
cmpb $0x1, 0x38(%rbx)
jne 0x172b42
incq 0x40(%rbx)
popq %rbx
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-contfind-bottomup.c
// Function: processcontained
static inline void processcontained(GtUword seqnum,
    ContfindBUstate *state)
{
  if (state->firstrevcompl > 0)
    seqnum = GT_READJOINER_READNUM(seqnum, state->firstrevcompl,
        state->nofsequences);
  if (!GT_ISIBITSET(state->contained, seqnum))
  {
    GT_SETIBIT(state->contained, seqnum);
    state->counter++;
  }
  if (state->csize == 0 || seqnum < state->cmin)
    state->cmin = seqnum;
  state->csize++;
}

// Assembly:
movq %rdi, %rcx
movq 0x48(%rsi), %rax
decq %rax
cmpq %rdi, %rax
jae 0x173f32
notq %rcx
addq 0x50(%rsi), %rcx
movq 0x20(%rsi), %rax
movq %rcx, %rdx
shrq $0x6, %rdx
movq (%rax,%rdx,8), %rdi
movabsq $-0x8000000000000000, %r8 # imm = 0x8000000000000000
shrq %cl, %r8
testq %r8, %rdi
jne 0x173f5e
orq %r8, %rdi
movq %rdi, (%rax,%rdx,8)
incq 0x58(%rsi)
movq 0x30(%rsi), %rax
testq %rax, %rax
je 0x173f6d
cmpq 0x28(%rsi), %rcx
jae 0x173f71
movq %rcx, 0x28(%rsi)
incq %rax
movq %rax, 0x30(%rsi)
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-contfinder.c
// Function: gt_contfinder_write_seqnums
int gt_contfinder_write_seqnums(GtContfinder *contfinder, bool sorted,
    GtFile *outfp, GT_UNUSED GtError *err)
{
  int had_err = 0;
  gt_contfinder_seqnum_t i;
  if (sorted)
  {
    for (i = 0; i < contfinder->logicalnofseqs; i++)
      if (!GT_ISIBITSET(contfinder->contained,
            GT_READJOINER_CONTFINDER_GET_SEQNUM(contfinder->seqnums, i)))
        gt_file_xprintf(outfp, ""GT_WU"\n", (GtUword)
            GT_READJOINER_CONTFINDER_GET_SEQNUM(contfinder->seqnums, i));
  }
  else
  {
    for (i = 0; i < contfinder->nofseqs; i++)
      if (!GT_ISIBITSET(contfinder->contained, i))
        gt_file_xprintf(outfp, ""GT_WU"\n", (GtUword)i);
  }
  return had_err;
}

// Assembly:
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
movq %rdx, %rbx
movq %rdi, %r14
movabsq $-0x8000000000000000, %r13 # imm = 0x8000000000000000
leaq 0x17c863(%rip), %r15    # 0x2f0a3b
xorl %r12d, %r12d
testl %esi, %esi
jne 0x174247
movl 0xc(%r14), %eax
cmpq %rax, %r12
jae 0x174250
movq 0x10(%r14), %rax
movq %r13, %rdx
movl %r12d, %ecx
shrq %cl, %rdx
movq %r12, %rcx
shrq $0x6, %rcx
testq %rdx, (%rax,%rcx,8)
jne 0x174212
movq %rbx, %rdi
movq %r15, %rsi
movq %r12, %rdx
xorl %eax, %eax
callq 0x8d432
incq %r12
jmp 0x1741df
movq 0x10(%r14), %rax
movq 0x48(%r14), %rcx
movl (%rcx,%r12,4), %ecx
movq %r13, %rdx
shrq %cl, %rdx
movl %ecx, %esi
shrl $0x6, %esi
testq %rdx, (%rax,%rsi,8)
jne 0x174244
movq %rbx, %rdi
movq %r15, %rsi
movq %rcx, %rdx
xorl %eax, %eax
callq 0x8d432
incq %r12
movl 0x8(%r14), %eax
cmpq %rax, %r12
jb 0x174217
xorl %eax, %eax
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-contfinder.c
// Function: gt_contfinder_write_sorted_seqnums
int gt_contfinder_write_sorted_seqnums(GtContfinder *contfinder, char* path,
    GtError *err)
{
  int had_err = 0;
  GtFile *file;
  file = gt_file_new(path, "wb", err);
  if (file == NULL)
    had_err = -1;
  if (!had_err)
  {
    had_err = gt_contfinder_write_seqnums(contfinder, true, file, err);
  }
  gt_file_delete(file);
  return had_err;
}

// Assembly:
pushq %rbp
pushq %r14
pushq %rbx
movq %rsi, %rax
movq %rdi, %r14
leaq 0x181884(%rip), %rsi    # 0x2f5af1
movq %rax, %rdi
callq 0x8ce05
movq %rax, %rbx
testq %rax, %rax
je 0x17428f
pushq $0x1
popq %rsi
movq %r14, %rdi
movq %rbx, %rdx
callq 0x1741b8
xorl %ebp, %ebp
jmp 0x174292
pushq $-0x1
popq %rbp
movq %rbx, %rdi
callq 0x8da06
movl %ebp, %eax
popq %rbx
popq %r14
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-contfinder.c
// Function: gt_contfinder_write_copynum
int gt_contfinder_write_copynum(GtContfinder *contfinder, char* path,
    GtError *err)
{
  int had_err = 0;
  gt_contfinder_seqnum_t i;
  FILE *file;
  file = gt_fa_fopen(path, "wb", err);
  if (file == NULL)
    had_err = -1;
  else
  {
#ifndef NDEBUG
    gt_contfinder_seqnum_t n_noncontained = 0;
    GtUword cnsum = 0;
    bool had_overflow = false;
#endif
    gt_contfinder_copynum_t cn;
    for (i = 0; i < contfinder->nofseqs; i++)
    {
      cn = contfinder->copynum[i];
      if (cn > 0)
      {
        gt_xfwrite(contfinder->copynum + i, sizeof (*contfinder->copynum),
            (size_t)1, file);
#ifndef NDEBUG
        n_noncontained++;
        if (cn == GT_CONTFINDER_COPYNUM_MAX)
        {
          had_overflow = true;
        }
        cnsum += cn;
#endif
      }
    }
    gt_assert(n_noncontained == contfinder->nofseqs -
        gt_contfinder_nofcontained(contfinder));
    gt_assert(had_overflow || (cnsum == (GtUword)contfinder->nofseqs));
    gt_fa_fclose(file);
  }
  return had_err;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
pushq %rax
movq %rdx, %r8
movq %rsi, %rax
movq %rdi, %r14
leaq 0x18181d(%rip), %rsi    # 0x2f5af1
leaq 0x1d8ffa(%rip), %rdx    # 0x34d2d5
movq %rax, %rdi
movl $0x32c, %ecx            # imm = 0x32C
callq 0x8a156
movq %rax, (%rsp)
testq %rax, %rax
je 0x17436c
xorl %ebp, %ebp
xorl %ebx, %ebx
xorl %r13d, %r13d
xorl %r12d, %r12d
movl 0xc(%r14), %r15d
cmpq %r15, %rbp
jae 0x17433b
movq 0x40(%r14), %rdi
movzbl (%rdi,%rbp), %r15d
testq %r15, %r15
je 0x174336
addq %rbp, %rdi
pushq $0x1
popq %rdx
movq %rdx, %rsi
movq (%rsp), %rcx
callq 0xb302c
incl %ebx
cmpq $0xff, %r15
sete %al
orb %al, %r12b
addq %r15, %r13
incq %rbp
jmp 0x1742fb
movl %ebx, %ebx
movq %r14, %rdi
callq 0x1743e4
movq %r15, %rcx
subq %rax, %rcx
cmpq %rbx, %rcx
jne 0x17437e
cmpq %r15, %r13
sete %al
orb %al, %r12b
testb $0x1, %r12b
je 0x1743ac
movq (%rsp), %rdi
callq 0x8a4fd
xorl %eax, %eax
jmp 0x17436f
pushq $-0x1
popq %rax
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
movq 0x2c3be3(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x170c84(%rip), %rsi    # 0x2e5013
leaq 0x1d8f5a(%rip), %rdx    # 0x34d2f0
leaq 0x1d8fa2(%rip), %rcx    # 0x34d33f
leaq 0x1d8f31(%rip), %r8     # 0x34d2d5
movl $0x349, %r9d            # imm = 0x349
jmp 0x1743d8
movq 0x2c3bb5(%rip), %rax    # 0x437f68
movq (%rax), %rdi
leaq 0x170c56(%rip), %rsi    # 0x2e5013
leaq 0x1d8f97(%rip), %rdx    # 0x34d35b
leaq 0x1d8f74(%rip), %rcx    # 0x34d33f
leaq 0x1d8f03(%rip), %r8     # 0x34d2d5
movl $0x34a, %r9d            # imm = 0x34A
xorl %eax, %eax
callq 0x17a50
callq 0x17390
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-contfinder.c
// Function: gt_contfinder_nofcontained
GtUword gt_contfinder_nofcontained(GtContfinder *contfinder)
{
  size_t i;
  GtBitsequence v;
  GtUword nofcontained;
  const size_t tabsize = GT_NUMOFINTSFORBITS(contfinder->nofseqs);
  if (contfinder->contained == NULL)
    return 0;
  nofcontained = 0;
  for (i = 0; i < tabsize; i++)
  {
    v = contfinder->contained[i];
    for (/**/; v; nofcontained++)
      v &= v - 1;
  }
  return nofcontained;
}

// Assembly:
movl 0xc(%rdi), %eax
leal -0x1(%rax), %edx
shrl $0x6, %edx
incl %edx
cmpl $0x40, %eax
pushq $0x1
popq %rcx
cmovael %edx, %ecx
movq 0x10(%rdi), %rdx
testq %rdx, %rdx
je 0x174424
xorl %esi, %esi
xorl %eax, %eax
cmpq %rcx, %rsi
je 0x174426
movq (%rdx,%rsi,8), %rdi
testq %rdi, %rdi
je 0x17441f
leaq -0x1(%rdi), %r8
andq %r8, %rdi
incq %rax
jmp 0x17440e
incq %rsi
jmp 0x174405
xorl %eax, %eax
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-contfinder.c
// Function: gt_contfinder_delete
void gt_contfinder_delete(GtContfinder *contfinder)
{
  if (contfinder != NULL)
  {
    GT_READJOINER_CONTFINDER_FREE_SEQNUMS(contfinder->seqnums);
    gt_free(contfinder->contained);
    gt_free(contfinder->copynum);
    gt_free(contfinder);
  }
}

// Assembly:
testq %rdi, %rdi
je 0x1753a4
pushq %r14
pushq %rbx
pushq %rax
movq %rdi, %rbx
movq 0x48(%rdi), %rdi
leaq 0x1d7f77(%rip), %r14    # 0x34d2d5
movq %r14, %rsi
movl $0x387, %edx            # imm = 0x387
callq 0x936f9
movq 0x10(%rbx), %rdi
movq %r14, %rsi
movl $0x388, %edx            # imm = 0x388
callq 0x936f9
movq 0x40(%rbx), %rdi
movq %r14, %rsi
movl $0x389, %edx            # imm = 0x389
callq 0x936f9
movq %rbx, %rdi
movq %r14, %rsi
movl $0x38a, %edx            # imm = 0x38A
addq $0x8, %rsp
popq %rbx
popq %r14
jmp 0x936f9
retq
// File: /workspace/github_c_makefile_star2_O2/genometools[P]genometools/src/match/rdj-contfinder.c
// Function: gt_contfinder_new
GtContfinder* gt_contfinder_new(GtReads2Twobit *r2t)
{
  GtContfinder *contfinder;
  contfinder = gt_malloc(sizeof (*contfinder));
  contfinder->contained = NULL;
  contfinder->copynum = NULL;
  contfinder->seqnums = NULL;
  contfinder->twobitencoding = gt_reads2twobit_export_twobitencoding(r2t);
  contfinder->seppos = (size_t*)gt_reads2twobit_export_seppos(r2t);
  contfinder->nofseqs = (gt_contfinder_seqnum_t)gt_reads2twobit_nofseqs(r2t);
  contfinder->logicalnofseqs = contfinder->nofseqs;
  contfinder->len = (size_t)gt_reads2twobit_seqlen_eqlen(r2t);
  return contfinder;
}

// Assembly:
pushq %r14
pushq %rbx
pushq %rax
movq %rdi, %rbx
leaq 0x1d7f22(%rip), %rsi    # 0x34d2d5
pushq $0x50
popq %rdi
movl $0x3a3, %edx            # imm = 0x3A3
callq 0x93160
movq %rax, %r14
andq $0x0, 0x10(%rax)
xorps %xmm0, %xmm0
movups %xmm0, 0x40(%rax)
movq %rbx, %rdi
callq 0x18bb4f
movq %rax, (%r14)
movq %rbx, %rdi
callq 0x18bb92
movq %rax, 0x20(%r14)
movq %rbx, %rdi
callq 0x18bc5b
movl %eax, 0xc(%r14)
movl %eax, 0x8(%r14)
movq %rbx, %rdi
callq 0x18bc9e
movq %rax, 0x18(%r14)
movq %r14, %rax
addq $0x8, %rsp
popq %rbx
popq %r14
retq