LLM4Binary/decompile-bench-makefile huggingface dataset:
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch-align.c
// Function: gt_querymatchoutoptions_cigar_show
void gt_querymatchoutoptions_cigar_show(const GtQuerymatchoutoptions
                                              *querymatchoutoptions,
                                        bool distinguish_mismatch_match,
                                        FILE *fp)
{
  gt_assert(querymatchoutoptions != NULL &&
            querymatchoutoptions->eoplist != NULL);
  gt_eoplist_reader_reset(querymatchoutoptions->eoplist_reader,
                          querymatchoutoptions->eoplist,true);
  gt_eoplist_show_cigar(querymatchoutoptions->eoplist_reader,
                        distinguish_mismatch_match,fp);
}

// Assembly:
pushq %rbp
pushq %r14
pushq %rbx
testq %rdi, %rdi
je 0x1b9c63
movl %esi, %ebp
movq %rdi, %r14
movq 0x28(%rdi), %rsi
testq %rsi, %rsi
je 0x1b9c63
movq %rdx, %rbx
movq 0x30(%r14), %rdi
movl $0x1, %edx
callq 0x317fcb
movq 0x30(%r14), %rdi
movzbl %bpl, %esi
movq %rbx, %rdx
popq %rbx
popq %r14
popq %rbp
jmp 0x318d0d
callq 0x6765c
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch-align.c
// Function: gt_querymatchoutoptions_trace_show
void gt_querymatchoutoptions_trace_show(const GtQuerymatchoutoptions
                                              *querymatchoutoptions,
                                        bool dtrace,
                                        FILE *fp)
{
  GtEoplistSegment segment;
  bool first = true;

  gt_assert(querymatchoutoptions != NULL);
  gt_eoplist_reader_reset(querymatchoutoptions->eoplist_reader,
                          querymatchoutoptions->eoplist,true);
  while (gt_eoplist_reader_next_segment(&segment,
                                        querymatchoutoptions->eoplist_reader,
                                        querymatchoutoptions->trace_delta))
  {
    if (!first)
    {
      fputc(',',fp);
    } else
    {
      first = false;
    }
    fprintf(fp,"%d",dtrace ? ((int) querymatchoutoptions->trace_delta -
                              (int) segment.aligned_v)
                           : (int) segment.aligned_v);
  }
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r12
pushq %rbx
subq $0x10, %rsp
testq %rdi, %rdi
je 0x1b9d05
movq %rdx, %rbx
movl %esi, %ebp
movq %rdi, %r14
movq 0x28(%rdi), %rsi
movq 0x30(%rdi), %rdi
movl $0x1, %edx
callq 0x317fcb
movq 0x10(%r14), %rdx
movq 0x30(%r14), %rsi
movq %rsp, %rdi
callq 0x3187da
testb %al, %al
je 0x1b9cf8
leaq 0x2102d8(%rip), %r15    # 0x3c9f8a
movq %rsp, %r12
testb %bpl, %bpl
je 0x1b9cc4
movl 0x10(%r14), %edx
subl 0x8(%rsp), %edx
jmp 0x1b9cc8
movl 0x8(%rsp), %edx
movq %rbx, %rdi
movq %r15, %rsi
xorl %eax, %eax
callq 0x17ab0
movq 0x10(%r14), %rdx
movq 0x30(%r14), %rsi
movq %r12, %rdi
callq 0x3187da
testb %al, %al
je 0x1b9cf8
movl $0x2c, %edi
movq %rbx, %rsi
callq 0x17980
jmp 0x1b9cb5
addq $0x10, %rsp
popq %rbx
popq %r12
popq %r14
popq %r15
popq %rbp
retq
callq 0x67695
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch-display.c
// Function: gt_querymatch_Options_output
void gt_querymatch_Options_output(FILE *stream,int argc,const char **argv,
                                  bool idhistout,GtUword minidentity,
                                  GtUword historysize)
{
  int idx;
  bool minid_out = false, history_out = false;

  fprintf(stream,"# Options:");
  for (idx = 1; idx < argc; idx++) {
    if (strcmp(argv[idx],"-minidentity") == 0) {
      minid_out = true;
    }
    if (strcmp(argv[idx],"-history") == 0) {
      history_out = true;
    }
    fprintf(stream," %s", argv[idx]);
  }
  if (idhistout)
  {
    if (!minid_out)
    {
      fprintf(stream," -minidentity " GT_WU,minidentity);
    }
    if (!history_out)
    {
      fprintf(stream," -history " GT_WU,historysize);
    }
  }
  fputc('\n',stream);
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x28, %rsp
movq %r9, %r12
movq %r8, 0x10(%rsp)
movl %ecx, %ebx
movq %rdx, %r13
movl %esi, %ebp
movq %rdi, %r15
leaq 0x1f0868(%rip), %rdi    # 0x3aaef2
movl $0x1, %r14d
movl $0xa, %esi
movl $0x1, %edx
movq %r15, %rcx
callq 0x17fa0
cmpl $0x2, %ebp
jl 0x1ba741
movl %ebx, 0xc(%rsp)
movq %r12, 0x18(%rsp)
movl %ebp, %eax
movq %rax, 0x20(%rsp)
movq %r13, %r12
xorl %r13d, %r13d
xorl %ebx, %ebx
movq (%r12,%r14,8), %rbp
movq %rbp, %rdi
leaq 0x1f082c(%rip), %rsi    # 0x3aaefd
callq 0x17a40
testl %eax, %eax
sete %al
orb %al, %bl
movq %rbp, %rdi
leaq 0x1f0823(%rip), %rsi    # 0x3aaf0a
callq 0x17a40
testl %eax, %eax
sete %al
orb %al, %r13b
movq %r15, %rdi
leaq 0x1f08d8(%rip), %rsi    # 0x3aafd6
movq %rbp, %rdx
xorl %eax, %eax
callq 0x17ab0
incq %r14
cmpq %r14, 0x20(%rsp)
jne 0x1ba6c3
cmpb $0x0, 0xc(%rsp)
movq 0x18(%rsp), %r12
je 0x1ba76f
testb $0x1, %bl
jne 0x1ba739
leaq 0x1f07e9(%rip), %rsi    # 0x3aaf13
movq %r15, %rdi
movq 0x10(%rsp), %rdx
xorl %eax, %eax
callq 0x17ab0
testb $0x1, %r13b
je 0x1ba75b
jmp 0x1ba76f
testb %bl, %bl
je 0x1ba76f
leaq 0x1f07c7(%rip), %rsi    # 0x3aaf13
movq %r15, %rdi
movq 0x10(%rsp), %rdx
xorl %eax, %eax
callq 0x17ab0
leaq 0x1f07c3(%rip), %rsi    # 0x3aaf25
movq %r15, %rdi
movq %r12, %rdx
xorl %eax, %eax
callq 0x17ab0
movl $0xa, %edi
movq %r15, %rsi
addq $0x28, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
jmp 0x17980
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch-display.c
// Function: gt_querymatch_Fields_output
void gt_querymatch_Fields_output(FILE *stream,
                                 const GtSeedExtendDisplayFlag *display_flag)
{
  const unsigned int *column_order;
  GtUword numcolumns, idx;

  gt_assert(display_flag != NULL);
  column_order = gt_querymatch_display_order(&numcolumns,display_flag);
  gt_assert(numcolumns > 0);
  fprintf(stream,"# Fields: ");
  gt_assert(numcolumns <= GT_DISPLAY_LARGEST_FLAG);
  for (idx = 0; idx < numcolumns; idx++)
  {
    unsigned int argnum, flag = column_order[idx];
    gt_assert(flag < sizeof gt_display_flag2index/
                     sizeof gt_display_flag2index[0]);
    argnum = gt_display_flag2index[flag];
    gt_assert(argnum < sizeof gt_display_arguments_table/
                       sizeof gt_display_arguments_table[0]);
    if (flag == Gt_Identity_display)
    {
      fprintf(stream,"%% %s",gt_display_arguments_table[argnum].name);
    } else
    {
      gt_querymatch_display_keyword_out(stream,
                                        gt_display_arguments_table[argnum].
                                          name);
    }
    fprintf(stream,"%s",idx < numcolumns - 1 ? ", " : "\n");
  }
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
pushq %rax
testq %rsi, %rsi
je 0x1ba8a4
movq %rsi, %r13
movq 0xb8(%rsi), %rbx
testq %rbx, %rbx
je 0x1ba8a9
movq %rdi, %r14
leaq 0x1f07a3(%rip), %rdi    # 0x3aaf5e
movl $0xa, %esi
movl $0x1, %edx
movq %r14, %rcx
callq 0x17fa0
cmpq $0x26, %rbx
ja 0x1ba8ae
movq %rbx, %r15
leaq -0x1(%rbx), %rax
movq %rax, (%rsp)
leaq 0x19ca3d(%rip), %r12    # 0x357226
xorl %ebx, %ebx
movl 0x8(%r13,%rbx,4), %eax
cmpq $0x27, %rax
jae 0x1ba89f
movq %r13, %rbp
leaq 0x1f0d9c(%rip), %rcx    # 0x3ab5a0
movl (%rcx,%rax,4), %ecx
shlq $0x4, %rcx
leaq 0x2fface(%rip), %rdx    # 0x4ba2e0
movq (%rcx,%rdx), %r13
cmpq $0x1f, %rax
jne 0x1ba85b
movq %r14, %rdi
leaq 0x1f07ae(%rip), %rsi    # 0x3aafd4
movq %r13, %rdx
xorl %eax, %eax
callq 0x17ab0
cmpq (%rsp), %rbx
leaq 0x205864(%rip), %rdi    # 0x3c009f
leaq 0x1eadbf(%rip), %rax    # 0x3a5601
cmovbq %rax, %rdi
movq %r14, %rsi
callq 0x178c0
incq %rbx
cmpq %r15, %rbx
movq %rbp, %r13
jne 0x1ba7eb
jmp 0x1ba890
movzbl (%r13), %eax
cmpl $0x2e, %eax
je 0x1ba876
testl %eax, %eax
je 0x1ba830
movsbl %al, %edi
movq %r14, %rsi
callq 0x17980
jmp 0x1ba88b
movl $0x2, %esi
movl $0x1, %edx
movq %r12, %rdi
movq %r14, %rcx
callq 0x17fa0
incq %r13
jmp 0x1ba85b
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
callq 0x6799f
callq 0x67a11
callq 0x679d8
callq 0x67966
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch-display.c
// Function: gt_querymatch_read_Fields_line
GtStrArray *gt_querymatch_read_Fields_line(const char *line_ptr)
{
  const char *header = "# Fields:", *ptr, *last_start;
  const size_t header_len = strlen(header);
  GtStrArray *fields;

  if (strncmp(header,line_ptr,header_len) != 0)
  {
    return NULL;
  }
  fields = gt_str_array_new();
  for (last_start = ptr = line_ptr + header_len + 1; /* Nothing */; ptr++)
  {
    if (*ptr == ',' || *ptr == '\0')
    {
      GtUword len_arg;

      if (*last_start == '%')
      {
        last_start += 2;
      }
      len_arg = (size_t) (ptr - last_start);
      gt_str_array_add_cstr_nt(fields, last_start, len_arg);
      last_start = ptr + 2;
    }
    if (*ptr == '\0')
    {
      break;
    }
  }
  return fields;
}

// Assembly:
pushq %r15
pushq %r14
pushq %rbx
movq %rdi, %rbx
leaq 0x1f0729(%rip), %rdi    # 0x3ab012
movl $0x9, %edx
movq %rbx, %rsi
callq 0x17330
testl %eax, %eax
je 0x1ba906
xorl %r14d, %r14d
movq %r14, %rax
popq %rbx
popq %r14
popq %r15
retq
callq 0x11be10
movq %rax, %r14
leaq 0xa(%rbx), %r15
addq $0xc, %rbx
movq %r15, %rax
movzbl -0x2(%rbx), %ecx
cmpl $0x2c, %ecx
je 0x1ba926
testl %ecx, %ecx
jne 0x1ba949
xorl %ecx, %ecx
cmpb $0x25, (%rax)
sete %cl
leaq (%rax,%rcx,2), %rsi
movq %r15, %rdx
subq %rsi, %rdx
movq %r14, %rdi
callq 0x11bf23
cmpb $0x0, -0x2(%rbx)
movq %rbx, %rax
je 0x1ba8fd
incq %rbx
incq %r15
jmp 0x1ba919
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch-display.c
// Function: strcmp_ignore_ws
static int strcmp_ignore_ws(const char *s,const char *t)
{
  const char *sptr = s, *tptr = t;
  while (true)
  {
    if (isspace(*sptr))
    {
      sptr++;
    } else
    {
      if (isspace(*tptr))
      {
        tptr++;
      } else
      {
        if (*sptr < *tptr)
        {
          return -1;
        }
        if (*sptr > *tptr)
        {
          return 1;
        }
        if (*sptr == '\0')
        {
          return 0;
        }
        sptr++;
        tptr++;
      }
    }
  }
}

// Assembly:
pushq %r14
pushq %rbx
pushq %rax
movq %rsi, %rbx
movq %rdi, %r14
callq 0x17870
movq (%rax), %rax
movsbq (%r14), %rcx
movzwl (%rax,%rcx,2), %edx
btl $0xd, %edx
jb 0x1ba98f
movsbq (%rbx), %rsi
testb $0x20, 0x1(%rax,%rsi,2)
je 0x1ba981
incq %rbx
jmp 0x1ba96b
cmpb %sil, %cl
jl 0x1ba994
jg 0x1ba99b
testb %cl, %cl
je 0x1ba9a2
incq %rbx
incq %r14
jmp 0x1ba963
movl $0xffffffff, %eax       # imm = 0xFFFFFFFF
jmp 0x1ba9a4
movl $0x1, %eax
jmp 0x1ba9a4
xorl %eax, %eax
addq $0x8, %rsp
popq %rbx
popq %r14
retq
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch-display.c
// Function: gt_querymatch_display_flag_add
static void gt_querymatch_display_flag_add(GtSeedExtendDisplayFlag
                                            *display_flag,
                                           GtSeedExtendDisplay_enum flag)
{
  const uint64_t mask = gt_display_mask(flag);

  gt_assert(display_flag != NULL);
  if ((display_flag->flags & mask) == 0)
  {
    display_flag->flags |= mask;
    gt_assert(flag <= GT_DISPLAY_LARGEST_FLAG);
    if (gt_display_arguments_table[gt_display_flag2index[flag]].incolumn)
    {
      gt_assert(display_flag->nextfree <= GT_DISPLAY_LARGEST_FLAG);
      display_flag->order[display_flag->nextfree++] = flag;
    }
  }
}

// Assembly:
pushq %r14
pushq %rbx
pushq %rax
movl %esi, %ebx
movq %rdi, %r14
movl %esi, %edi
callq 0x1ba5f4
testq %r14, %r14
je 0x1baa17
movq (%r14), %rcx
testq %rax, %rcx
jne 0x1baa0f
orq %rax, %rcx
movq %rcx, (%r14)
cmpl $0x27, %ebx
jae 0x1baa1c
movl %ebx, %eax
leaq 0x1f0bc3(%rip), %rcx    # 0x3ab5a0
movl (%rcx,%rax,4), %eax
shlq $0x4, %rax
leaq 0x2ff8f5(%rip), %rcx    # 0x4ba2e0
cmpb $0x1, 0xc(%rax,%rcx)
jne 0x1baa0f
movq 0xb8(%r14), %rax
cmpq $0x27, %rax
jae 0x1baa21
leaq 0x1(%rax), %rcx
movq %rcx, 0xb8(%r14)
movl %ebx, 0x8(%r14,%rax,4)
addq $0x8, %rsp
popq %rbx
popq %r14
retq
callq 0x67af5
callq 0x67a83
callq 0x67abc
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch-display.c
// Function: gt_display_arg_get
static const GtSEdisplayStruct *gt_display_arg_get(char *copyspace,
                                                   const char *str,
                                                   size_t cmplen)
{
  char *copy = NULL;
  const GtSEdisplayStruct *left = gt_display_arguments_table,
                          *right = gt_display_arguments_table +
                                   sizeof gt_display_arguments_table/
                                   sizeof gt_display_arguments_table[0] - 1;

  if (cmplen > 0)
  {
    copy = copyspace;
    memcpy(copy,str,sizeof *copy * cmplen);
    copy[cmplen] = '\0';
  }
  while (left <= right)
  {
    const GtSEdisplayStruct *mid = left + (right - left + 1)/2;
    const int cmp = strcmp_ignore_ws(copy == NULL ? str : copy,mid->name);

    if (cmp < 0)
    {
      right = mid - 1;
    } else
    {
      if (cmp > 0)
      {
        left = mid + 1;
      } else
      {
        return mid;
      }
    }
  }
  return NULL;
}

// Assembly:
pushq %r15
pushq %r14
pushq %r12
pushq %rbx
pushq %rax
movq %rsi, %rbx
testq %rdx, %rdx
je 0x1baa4b
movq %rdx, %r15
movq %rdi, %r14
movq %rbx, %rsi
callq 0x17660
movb $0x0, (%r14,%r15)
jmp 0x1baa4e
xorl %r14d, %r14d
testq %r14, %r14
cmovneq %r14, %rbx
leaq 0x2ff884(%rip), %r12    # 0x4ba2e0
leaq 0x2ffadd(%rip), %r15    # 0x4ba540
movq %r15, %rax
subq %r12, %rax
sarq $0x4, %rax
leaq 0x1(%rax), %rcx
shrq $0x3f, %rcx
addq %rcx, %rax
incq %rax
andq $-0x2, %rax
leaq (%r12,%rax,8), %r14
movq (%r14), %rsi
movq %rbx, %rdi
callq 0x1ba951
testl %eax, %eax
js 0x1baa9d
je 0x1baaac
addq $0x10, %r14
movq %r14, %r12
jmp 0x1baaa4
addq $-0x10, %r14
movq %r14, %r15
cmpq %r15, %r12
jbe 0x1baa63
xorl %r14d, %r14d
movq %r14, %rax
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r14
popq %r15
retq
nop
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_new
GtQuerymatch *gt_querymatch_new(void)
{
  GtQuerymatch *querymatch = gt_malloc(sizeof *querymatch);

  gt_assert(querymatch != NULL);
  querymatch->ref_querymatchoutoptions = NULL;
  querymatch->verify_alignment = false;
  querymatch->query_readmode = GT_READMODE_FORWARD;
  querymatch->fp = stdout;
  querymatch->queryseqnum = GT_UWORD_MAX;
  querymatch->db_desc = NULL;
  querymatch->query_desc = NULL;
  return querymatch;
}

// Assembly:
pushq %rax
leaq 0x1f0c74(%rip), %rsi    # 0x3ab738
movl $0xb8, %edi
movl $0x3f, %edx
callq 0x104226
testq %rax, %rax
je 0x1bab19
movq $0x0, 0x90(%rax)
movb $0x0, 0x8d(%rax)
movl $0x0, 0x88(%rax)
movq 0x2fe3dd(%rip), %rcx    # 0x4b8ed8
movq (%rcx), %rcx
movq %rcx, 0x98(%rax)
movq $-0x1, 0x28(%rax)
xorps %xmm0, %xmm0
movups %xmm0, 0xa0(%rax)
popq %rcx
retq
callq 0x67b2e
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_outoptions_set
void gt_querymatch_outoptions_set(GtQuerymatch *querymatch,
                GtQuerymatchoutoptions *querymatchoutoptions)
{
  gt_assert(querymatch != NULL && querymatchoutoptions != NULL);
  querymatch->ref_querymatchoutoptions = querymatchoutoptions;
  querymatch->ref_eoplist
    = gt_querymatchoutoptions_eoplist(querymatchoutoptions);
}

// Assembly:
pushq %rbx
testq %rdi, %rdi
je 0x1bac09
testq %rsi, %rsi
je 0x1bac09
movq %rdi, %rbx
movq %rsi, 0x90(%rdi)
movq %rsi, %rdi
callq 0x1b9e11
movq %rax, 0xb0(%rbx)
popq %rbx
retq
callq 0x67b9c
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_init
void gt_querymatch_init(GtQuerymatch *querymatch,
                        GtUword dblen,
                        GtUword dbseqnum,
                        GtUword dbstart_relative,
                        GtUword db_seqstart,
                        GtUword db_seqlen,
                        GtWord score,
                        GtUword distance,
                        GtUword mismatches,
                        bool selfmatch,
                        GtUword queryseqnum,
                        GtUword querylen,
                        GtUword querystart,
                        GtUword query_seqstart,
                        GtUword query_seqlen,
                        const char *db_desc,
                        const char *query_desc)
{
  gt_assert(querymatch != NULL);
  querymatch->dblen = dblen;
  querymatch->score = score;
  querymatch->distance = distance;
  querymatch->queryseqnum = queryseqnum;
  querymatch->querylen = querylen;
  querymatch->querystart = querystart;
  querymatch->dbseqnum = dbseqnum;
  querymatch->mismatches = mismatches;
  querymatch->dbstart_relative = dbstart_relative;
  gt_assert((int) querymatch->query_readmode < 4);
  querymatch->selfmatch = selfmatch;
  querymatch->query_seqlen = query_seqlen;
  querymatch->querystart_fwdstrand
    = gt_querymatch_position_convert(querymatch->query_readmode,
                                     querymatch->querylen,
                                     querymatch->query_seqlen,
                                     querymatch->querystart);
  querymatch->query_seqstart = query_seqstart;
  querymatch->db_seqstart = db_seqstart;
  querymatch->db_seqlen = db_seqlen;
  querymatch->db_desc = db_desc;
  querymatch->query_desc = query_desc;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
pushq %rax
testq %rdi, %rdi
je 0x1badaf
movq %r9, %rbx
movq %r8, %r14
movq %rcx, %rax
movq %rsi, %r8
movq %rdi, %r15
movq 0x70(%rsp), %rcx
movq 0x68(%rsp), %rsi
movq 0x60(%rsp), %rdi
movq 0x50(%rsp), %r9
movq 0x48(%rsp), %r10
movq 0x40(%rsp), %r11
movq %r8, 0x10(%r15)
movq %r11, 0x80(%r15)
movq %r10, 0x70(%r15)
movq %rdi, 0x28(%r15)
movq %rsi, 0x40(%r15)
movq %rcx, 0x30(%r15)
movq %rdx, (%r15)
movq %r9, 0x78(%r15)
movq %rax, 0x8(%r15)
movl 0x88(%r15), %edi
cmpl $0x4, %edi
jge 0x1badb4
movq 0x90(%rsp), %r12
movq 0x88(%rsp), %r13
movq 0x80(%rsp), %rdx
movq 0x78(%rsp), %rbp
movb 0x58(%rsp), %al
movb %al, 0x8c(%r15)
movq %rdx, 0x48(%r15)
callq 0x1badb9
movq %rax, 0x38(%r15)
movq %rbp, 0x50(%r15)
movq %r14, 0x20(%r15)
movq %rbx, 0x18(%r15)
movq %r13, 0xa0(%r15)
movq %r12, 0xa8(%r15)
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
callq 0x67c43
callq 0x67c0a
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_description_out
static int gt_non_white_space_prefix_length(const char *s)
{
  const char *sptr;

  gt_assert(s != NULL);
  for (sptr = s; !isspace(*sptr); sptr++)
  {
    /* Nothing */ ;
  }
  return (int) (sptr - s);
}

// Assembly:
pushq %r14
pushq %rbx
pushq %rax
testq %rsi, %rsi
je 0x1bb644
movq %rsi, %r14
movq %rdi, %rbx
callq 0x17870
movq (%rax), %rax
movabsq $-0x100000000, %rdx     # imm = 0xFFFFFFFF00000000
movabsq $0x100000000, %rcx      # imm = 0x100000000
movq %r14, %rsi
addq %rcx, %rdx
movsbq (%rsi), %rdi
incq %rsi
testb $0x20, 0x1(%rax,%rdi,2)
je 0x1bb618
sarq $0x20, %rdx
movl $0x1, %esi
movq %r14, %rdi
movq %rbx, %rcx
addq $0x8, %rsp
popq %rbx
popq %r14
jmp 0x17fa0
callq 0x67e47
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_show_failed_seed
void gt_querymatch_show_failed_seed(const GtSeedExtendDisplayFlag
                                       *out_display_flag,
                                    const GtQuerymatch *querymatch)
{
  if (gt_querymatch_failed_seed_display(out_display_flag))
  {
    const char separator
      = (gt_querymatch_blast_display(out_display_flag) ||
         gt_querymatch_tabsep_display(out_display_flag)) ? '\t' : ' ';
    fprintf(querymatch->fp, "# failed_seed:%c" GT_WU "%c" GT_WU "%c"  GT_WU
                                   "%c%c%c" GT_WU "%c" GT_WU "\n",
            separator,
            querymatch->seedlen,
            separator,
            querymatch->dbseqnum,
            separator,
            querymatch->db_seedpos_rel,
            separator,
            gt_seed_extend_outflag[querymatch->query_readmode],
            separator,
            querymatch->queryseqnum,
            separator,
            querymatch->query_seedpos_rel);
  }
}

// Assembly:
pushq %r14
pushq %rbx
pushq %rax
movq %rsi, %rbx
movq %rdi, %r14
callq 0x1b9e57
testb %al, %al
je 0x1bb6ca
movq %r14, %rdi
callq 0x1b9e87
movl $0x9, %edx
testb %al, %al
jne 0x1bb684
movq %r14, %rdi
callq 0x1b9e77
testb %al, %al
movl $0x9, %eax
movl $0x20, %edx
cmovnel %eax, %edx
movq 0x98(%rbx), %rdi
movq 0x68(%rbx), %rcx
movl 0x88(%rbx), %eax
leaq 0x1f05a9(%rip), %rsi    # 0x3abc45
movsbl (%rax,%rsi), %r10d
movq (%rbx), %r9
leaq 0x1f02fd(%rip), %rsi    # 0x3ab9a8
movl %edx, %r8d
xorl %eax, %eax
pushq 0x60(%rbx)
pushq %rdx
pushq 0x28(%rbx)
pushq %rdx
pushq %r10
pushq %rdx
pushq 0x58(%rbx)
pushq %rdx
callq 0x17ab0
addq $0x48, %rsp
jmp 0x1bb6ce
addq $0x8, %rsp
popq %rbx
popq %r14
retq
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/querymatch.c
// Function: gt_querymatch_evalue_bit_score_generic
static void gt_querymatch_evalue_bit_score_generic(double *evalue_ptr,
                                                   double *bit_score_ptr,
                                                   const GtKarlinAltschulStat
                                                     *karlin_altschul_stat,
                                                   GtUword query_seqlen,
                                                   GtUword matches,
                                                   GtUword mismatches,
                                                   GtUword indels)
{
  if (karlin_altschul_stat != NULL)
  {
    GtUword evalue_searchspace
      = gt_evalue_searchspace(karlin_altschul_stat,query_seqlen);
    GtWord raw_score = gt_evalue_raw_score(karlin_altschul_stat,
                                           matches,
                                           mismatches,
                                           indels);
    *evalue_ptr = gt_evalue_from_raw_score(karlin_altschul_stat,
                                           raw_score,
                                           evalue_searchspace);
    *bit_score_ptr = gt_evalue_raw_score2bit_score(karlin_altschul_stat,
                                                   raw_score);
    gt_assert(*evalue_ptr != DBL_MAX && *bit_score_ptr != DBL_MAX);
  }
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
pushq %rax
movq %r9, %r15
movq %r8, %r12
movq %rdx, %r13
movq %rsi, %r14
movq %rdi, %rbx
movq %rdx, %rdi
movq %rcx, %rsi
callq 0x1b727f
movq %rax, %rbp
movq %r13, %rdi
movq %r12, %rsi
movq %r15, %rdx
movq 0x40(%rsp), %rcx
callq 0x1b782a
movq %rax, %r15
movq %r13, %rdi
movq %rax, %rsi
movq %rbp, %rdx
callq 0x1b78ad
movsd %xmm0, (%rbx)
movq %r13, %rdi
movq %r15, %rsi
callq 0x1b7869
movsd %xmm0, (%r14)
movsd (%rbx), %xmm1
ucomisd 0x18c4a7(%rip), %xmm1   # 0x347d10
jne 0x1bb86d
jnp 0x1bb888
ucomisd 0x18c49b(%rip), %xmm0   # 0x347d10
jne 0x1bb879
jnp 0x1bb888
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
callq 0x67ef2
// File: /workspace/github_c_makefile_star2_O3/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 0x1bb901
testb %al, %al
je 0x1bb8f0
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 0x1bb6d2
addq $0x28, %rsp
jmp 0x1bb8f6
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_O3/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 0x1bb937
movq (%rdi), %rcx
movq 0x28(%rdi), %rdx
cmpq %rdx, %rcx
jb 0x1bb937
jne 0x1bb935
movq 0x8(%rdi), %rax
movl 0x88(%rdi), %ecx
orl $0x2, %ecx
cmpl $0x3, %ecx
jne 0x1bb938
movq 0x38(%rdi), %rcx
incq %rcx
jmp 0x1bb93c
xorl %eax, %eax
retq
movq 0x30(%rdi), %rcx
cmpq %rcx, %rax
setb %al
retq
// File: /workspace/github_c_makefile_star2_O3/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 0x1bc228
movq (%rdi), %rdi
leaq 0x18(%rip), %rdx        # 0x1bc229
leaq 0x4d(%rip), %rcx        # 0x1bc265
testb %al, %al
cmovneq %rdx, %rcx
movl $0xb8, %edx
jmp 0x17f60
retq
// File: /workspace/github_c_makefile_star2_O3/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 0x1bc25f
testq %rsi, %rsi
je 0x1bc25f
movq 0x28(%rsi), %rcx
movl $0xffffffff, %eax       # imm = 0xFFFFFFFF
cmpq %rcx, 0x28(%rdi)
jb 0x1bc25e
jne 0x1bc259
movq 0x40(%rdi), %rcx
addq 0x38(%rdi), %rcx
movq 0x40(%rsi), %rdx
addq 0x38(%rsi), %rdx
cmpq %rdx, %rcx
jbe 0x1bc25e
movl $0x1, %eax
retq
pushq %rax
callq 0x68249
// File: /workspace/github_c_makefile_star2_O3/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 0x1bc29b
testq %rsi, %rsi
je 0x1bc29b
movq 0x28(%rsi), %rcx
movl $0x1, %eax
cmpq %rcx, 0x28(%rdi)
jb 0x1bc29a
jne 0x1bc295
movq 0x40(%rdi), %rcx
addq 0x38(%rdi), %rcx
movq 0x40(%rsi), %rdx
addq 0x38(%rsi), %rdx
cmpq %rdx, %rcx
jbe 0x1bc29a
movl $0xffffffff, %eax       # imm = 0xFFFFFFFF
retq
pushq %rax
callq 0x68282
// File: /workspace/github_c_makefile_star2_O3/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 0x1bc316
movq (%rbx), %rdi
leaq 0x1ef436(%rip), %rdx    # 0x3ab738
movq %r14, %rsi
movl $0x4dd, %ecx            # imm = 0x4DD
callq 0x104461
movq %rax, (%rbx)
movq %r14, 0x10(%rbx)
cmpq 0x18(%rbx), %r15
jb 0x1bc33c
movq 0x8(%rbx), %rdi
leaq 0x1ef411(%rip), %rdx    # 0x3ab738
movq %r15, %rsi
movl $0x4e4, %ecx            # imm = 0x4E4
callq 0x104461
movq %rax, 0x8(%rbx)
movq %r15, 0x18(%rbx)
movq (%rbx), %rsi
leaq (%r14,%r12), %rcx
decq %rcx
movq %rbp, %rdi
movq %r12, %rdx
callq 0xe9127
movq 0x8(%rbx), %rsi
leaq (%r15,%r13), %rcx
decq %rcx
movq 0x10(%rsp), %rdi
movq %r13, %rdx
callq 0xe9127
cmpl $0x3, 0xc(%rsp)
jne 0x1bc37c
movq 0x8(%rbx), %rdi
movq %r15, %rsi
callq 0x1df918
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_O3/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 0x1bcc39
pushq %r14
pushq %rbx
pushq %rax
movq %rdi, %rbx
movq 0x38(%rdi), %rdi
testq %rdi, %rdi
je 0x1bcbf9
callq 0xfd018
movq 0x30(%rbx), %rdi
leaq 0x1ef28a(%rip), %r14    # 0x3abe8e
movq %r14, %rsi
movl $0xe8, %edx
callq 0x1045eb
movq 0x28(%rbx), %rdi
movq %r14, %rsi
movl $0xe9, %edx
callq 0x1045eb
movq %rbx, %rdi
movq %r14, %rsi
movl $0xea, %edx
addq $0x8, %rsp
popq %rbx
popq %r14
jmp 0x1045eb
retq
// File: /workspace/github_c_makefile_star2_O3/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 0x1ef26d(%rip), %rdi    # 0x3abece
xorl %eax, %eax
callq 0x103d72
testq %r13, %r13
je 0x1bcc75
movq 0x48(%r14), %rax
addq %rax, (%r13)
movq 0x50(%r14), %rdx
leaq 0x1ef26b(%rip), %rdi    # 0x3abeeb
movl %ebp, %esi
xorl %eax, %eax
callq 0x103d72
testq %r12, %r12
je 0x1bcc96
movq 0x50(%r14), %rax
addq %rax, (%r12)
movq 0x58(%r14), %rdx
leaq 0x1ef265(%rip), %rdi    # 0x3abf06
movl %ebp, %esi
xorl %eax, %eax
callq 0x103d72
testq %r15, %r15
je 0x1bccb6
movq 0x58(%r14), %rax
addq %rax, (%r15)
movq 0x60(%r14), %rdx
leaq 0x1ef25d(%rip), %rdi    # 0x3abf1e
movl %ebp, %esi
xorl %eax, %eax
callq 0x103d72
testq %rbx, %rbx
je 0x1bccd6
movq 0x60(%r14), %rax
addq %rax, (%rbx)
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
nopl (%rax)
// File: /workspace/github_c_makefile_star2_O3/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
subq $0x18, %rsp
movq %rdx, (%rsp)
movq %rsi, %r15
movq %rdi, %r12
cmpq $0x2, %r8
jb 0x1bcdd6
movl $0x1, %ebx
xorl %ebp, %ebp
movq %r8, 0x10(%rsp)
movq %rcx, 0x8(%rsp)
movq %rbp, %r14
movzwl (%rcx,%rbx,2), %eax
cmpl 0x20(%r12), %eax
jae 0x1bcdc0
movq %rbx, %rax
movq %rbx, %rbp
subq %r14, %rax
je 0x1bcdc3
movq %rbx, %rbp
cmpq %rax, 0x28(%r12)
jbe 0x1bcdc3
movq (%r15,%r14,8), %rsi
movq (%rsp), %rbp
movq %rbp, %rdi
callq 0x1e2c38
movq %rax, %r13
movq (%r15,%r14,8), %rsi
movq %rbp, %rdi
callq 0x1e2c2e
movq %rax, %rbp
cmpq 0x8(%r12), %rax
jb 0x1bcd77
notq %rbp
addq 0x10(%r12), %rbp
movq (%r12), %rdi
movq %rbp, %rsi
callq 0xeb9d2
subq %r13, %rax
cmpq 0x20(%r12), %rax
jb 0x1bcdae
movabsq $-0x8000000000000000, %rax # imm = 0x8000000000000000
movl %ebp, %ecx
shrq %cl, %rax
movq 0x18(%r12), %rcx
shrq $0x6, %rbp
orq %rax, (%rcx,%rbp,8)
incq 0x30(%r12)
incq %r14
cmpq %r14, %rbx
jne 0x1bcd46
movq %rbx, %rbp
movq 0x8(%rsp), %rcx
jmp 0x1bcdc3
movq %r14, %rbp
incq %rbx
movq 0x10(%rsp), %r14
cmpq %r14, %rbx
jne 0x1bcd1b
jmp 0x1bcdde
movl $0x1, %r14d
xorl %ebp, %ebp
movq %r14, %rax
subq %rbp, %rax
je 0x1bce5e
cmpq %rax, 0x28(%r12)
jbe 0x1bce5e
movq (%r15,%rbp,8), %rsi
movq (%rsp), %r13
movq %r13, %rdi
callq 0x1e2c38
movq %rax, %rbx
movq (%r15,%rbp,8), %rsi
movq %r13, %rdi
callq 0x1e2c2e
movq %rax, %r13
cmpq 0x8(%r12), %rax
jb 0x1bce1e
notq %r13
addq 0x10(%r12), %r13
movq (%r12), %rdi
movq %r13, %rsi
callq 0xeb9d2
subq %rbx, %rax
cmpq 0x20(%r12), %rax
jb 0x1bce56
movabsq $-0x8000000000000000, %rax # imm = 0x8000000000000000
movl %r13d, %ecx
shrq %cl, %rax
movq 0x18(%r12), %rcx
shrq $0x6, %r13
orq %rax, (%rcx,%r13,8)
incq 0x30(%r12)
incq %rbp
cmpq %rbp, %r14
jne 0x1bcded
xorl %eax, %eax
addq $0x18, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O3/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 0x1ef110(%rip), %rsi    # 0x3abf99
movl $0x38, %edi
movl $0x58, %edx
callq 0x104226
movq %rax, %rbx
movl %r15d, %eax
movq %rax, 0x20(%rbx)
movl %ebp, %eax
movq %rax, 0x28(%rbx)
movq %r12, (%rbx)
movq %r12, %rdi
callq 0xe7bac
movq %rax, 0x10(%rbx)
movq %rax, 0x8(%rbx)
movq %r14, 0x18(%rbx)
movq (%rbx), %rdi
callq 0xf6567
testb %al, %al
je 0x1bcecf
shrq 0x8(%rbx)
movq $0x0, 0x30(%rbx)
movq %rbx, %rax
popq %rbx
popq %r12
popq %r14
popq %r15
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/randomcodes.c
// Function: gt_randomcodes_insertsuffixes_flush
static void gt_randomcodes_insertsuffixes_flush(void *data)
{
  GtRandomcodesinfo *fci = (GtRandomcodesinfo *) data;

  if (fci->buf.nextfree > 0)
  {
    const GtUword *ptr;

    gt_assert(fci->allrandomcodes != NULL);
    fci->codebuffer_total += fci->buf.nextfree;
    gt_radixsort_inplace_sort(fci->radixsort_codepos, fci->buf.nextfree);
    ptr = gt_randomcodes_find_insert(fci, fci->buf.spaceGtUwordPair[0].a);
    gt_assert(ptr != NULL);
    fci->total_inserted += gt_randomcodes_insertsuffixes_merge(fci,
        fci->buf.spaceGtUwordPair, ptr);
    gt_assert(fci->total_inserted == fci->codebuffer_total);
    fci->flushcount++;
    fci->buf.nextfree = 0;
  }
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x18, %rsp
movq 0xc0(%rdi), %rsi
testq %rsi, %rsi
je 0x1c1528
movq %rdi, %rbx
cmpq $0x0, 0xa0(%rdi)
je 0x1c1550
addq %rsi, 0x20(%rbx)
movq 0x80(%rbx), %rdi
callq 0x10fe4f
movq 0xe8(%rbx), %r13
movq (%r13), %rsi
movq %rbx, %rdi
callq 0x1bd093
testq %rax, %rax
je 0x1c1555
movq %rax, %r14
movq 0xc0(%rbx), %rax
shlq $0x4, %rax
leaq (%rax,%r13), %rcx
addq $-0x10, %rcx
xorl %esi, %esi
cmpq %r13, %rcx
jb 0x1c150c
movq 0x30(%rbx), %rdx
shlq $0x3, %rdx
addq 0xa0(%rbx), %rdx
cmpq %r14, %rdx
jb 0x1c150c
xorl %esi, %esi
movq %rcx, 0x8(%rsp)
movq %rdx, (%rsp)
movq (%r13), %rax
cmpq (%r14), %rax
jbe 0x1c140a
addq $0x8, %r14
jmp 0x1c14fe
movq %r14, %rax
subq 0xa0(%rbx), %rax
sarq $0x3, %rax
movq 0x1a0(%rbx), %rcx
testq %rcx, %rcx
je 0x1c1441
movq 0x190(%rbx), %rdx
xorl %r15d, %r15d
cmpq %rax, (%rdx,%r15,8)
jae 0x1c1444
incq %r15
cmpq %r15, %rcx
jne 0x1c142e
movq %rcx, %r15
jmp 0x1c1444
xorl %r15d, %r15d
cmpq %rax, 0x110(%rbx)
jbe 0x1c1546
movq 0x150(%rbx), %rcx
movl (%rcx,%rax,4), %ebp
testl %ebp, %ebp
movq %rsi, 0x10(%rsp)
je 0x1c1468
decl %ebp
jmp 0x1c1486
testq %r15, %r15
je 0x1c154b
movq 0x190(%rbx), %rdx
incq -0x8(%rdx,%r15,8)
decq %r15
movl 0x188(%rbx), %ebp
movl %ebp, (%rcx,%rax,4)
movb 0x18c(%rbx), %cl
shlq %cl, %r15
movq 0x88(%rbx), %r12
movq %r12, %rdi
callq 0x1fec06
testb %al, %al
je 0x1c14ba
movq 0xf8(%rbx), %rdi
movq 0x8(%r13), %rsi
callq 0x1e2c13
movq %rax, %rdx
jmp 0x1c14be
movq 0x8(%r13), %rdx
movl %ebp, %eax
addq %rax, %r15
subq (%r12), %r15
jb 0x1c1541
cmpq 0x8(%r12), %r15
jae 0x1c1537
cmpq %rdx, 0x10(%r12)
jb 0x1c1537
movq 0x20(%r12), %rdi
testq %rdi, %rdi
je 0x1c153c
movq %r15, %rsi
callq 0xe3c78
movq 0x10(%rsp), %rsi
incq %rsi
addq $0x10, %r13
movq 0x8(%rsp), %rcx
movq (%rsp), %rdx
cmpq %rcx, %r13
ja 0x1c150c
cmpq %rdx, %r14
jbe 0x1c13f8
addq 0x8(%rbx), %rsi
movq %rsi, 0x8(%rbx)
cmpq 0x20(%rbx), %rsi
jne 0x1c155a
incl 0x70(%rbx)
movq $0x0, 0xc0(%rbx)
addq $0x18, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
callq 0x68ad8
callq 0x68aa1
callq 0x68b0f
callq 0x68a6a
callq 0x68b46
callq 0x68bef
callq 0x68bb6
callq 0x68b7d
// File: /workspace/github_c_makefile_star2_O3/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 %r14
pushq %rbx
pushq %rax
movq %rdi, %rbx
cmpq $0x0, 0x48(%rdi)
je 0x1c15c5
movq 0xa8(%rbx), %rdi
movq $0x0, (%rsp)
leaq 0x1eab0a(%rip), %rdx    # 0x3ac08d
leaq 0x1eafa5(%rip), %r8     # 0x3ac52f
movl $0x31f, %esi            # imm = 0x31F
xorl %ecx, %ecx
movl $0x1, %r9d
callq 0x316945
movq 0x48(%rbx), %rdi
testq %rdi, %rdi
je 0x1c15c5
leaq 0x1eaae1(%rip), %rsi    # 0x3ac08d
movl $0x320, %edx            # imm = 0x320
callq 0x1045eb
movq $0x0, 0x48(%rbx)
xorps %xmm0, %xmm0
movups %xmm0, 0x58(%rbx)
movq 0x80(%rbx), %rdi
testq %rdi, %rdi
je 0x1c160b
callq 0x10f61d
movq 0xa8(%rbx), %rdi
xorl %r14d, %r14d
movq %r14, (%rsp)
leaq 0x1eaaa2(%rip), %rdx    # 0x3ac08d
leaq 0x1e4570(%rip), %r8     # 0x3a5b62
movl $0x325, %esi            # imm = 0x325
xorl %ecx, %ecx
movl $0x1, %r9d
callq 0x316945
movq %r14, 0x80(%rbx)
addq $0x8, %rsp
popq %rbx
popq %r14
retq
// File: /workspace/github_c_makefile_star2_O3/genometools[P]genometools/src/match/randomcodes.c
// Function: gt_randomcodes_accumulatecounts_flush
static void gt_randomcodes_accumulatecounts_flush(void *data)
{
  GtRandomcodesinfo *fci = (GtRandomcodesinfo *) data;

  if (fci->buf.nextfree > 0)
  {
    GtUword foundindex;

    gt_assert(fci->allrandomcodes != NULL);
    fci->codebuffer_total += fci->buf.nextfree;
    gt_radixsort_inplace_sort(fci->radixsort_code, fci->buf.nextfree);
    foundindex = gt_randomcodes_find_accu(fci, fci->buf.spaceGtUword[0]);
    gt_assert(foundindex != ULONG_MAX);
    fci->total_count += gt_randomcodes_accumulatecounts_merge(fci,
        fci->buf.spaceGtUword, fci->allrandomcodes + foundindex);
    gt_assert(fci->total_count == fci->codebuffer_total);
    fci->flushcount++;
    fci->buf.nextfree = 0;
  }
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x28, %rsp
movq 0xc0(%rdi), %rsi
testq %rsi, %rsi
je 0x1c198f
movq %rdi, %rbx
cmpq $0x0, 0xa0(%rdi)
je 0x1c19a3
addq %rsi, 0x20(%rbx)
movq 0x78(%rbx), %rdi
callq 0x10fe4f
movq 0xf0(%rbx), %rax
movq (%rax), %rsi
movq %rbx, %rdi
callq 0x1bcf20
cmpq $-0x1, %rax
je 0x1c19a8
movq 0xf0(%rbx), %r13
movq 0xc0(%rbx), %rcx
leaq -0x8(,%rcx,8), %rsi
addq %r13, %rsi
xorl %r12d, %r12d
cmpq %r13, %rsi
jb 0x1c1975
movq 0x38(%rbx), %rcx
movq 0xa0(%rbx), %rdx
leaq (%rdx,%rax,8), %rbp
leaq (%rdx,%rcx,8), %r14
addq $-0x8, %r14
cmpq %rbp, %r14
jb 0x1c1975
xorl %r12d, %r12d
movq %rsi, 0x8(%rsp)
movq (%r13), %rax
cmpq (%rbp), %rax
jbe 0x1c1857
addq $0x8, %rbp
jmp 0x1c1967
movq %rbp, %r15
subq 0xa0(%rbx), %r15
incq 0x140(%rbx)
sarq $0x3, %r15
movq 0x158(%rbx), %rax
movzbl (%rax,%r15), %ecx
cmpl $0xfe, %ecx
je 0x1c18b5
cmpl $0xff, %ecx
jne 0x1c190d
movq 0x180(%rbx), %rax
testq %rax, %rax
je 0x1c1915
cmpq %r15, 0x178(%rbx)
jne 0x1c1915
movl (%rax), %ecx
cmpl $-0x1, %ecx
je 0x1c19b2
incl %ecx
movl %ecx, (%rax)
jmp 0x1c1959
movb $-0x1, (%rax,%r15)
movq 0x160(%rbx), %rdi
movq %r15, 0x10(%rsp)
movl $0x1, 0x18(%rsp)
leaq 0x10(%rsp), %rsi
leaq 0x20(%rsp), %rdx
callq 0x1015ee
movq 0x20(%rsp), %rcx
testl %eax, %eax
jne 0x1c18ed
movl $0x1, 0x8(%rcx)
addq $0x8, %rcx
movq %rcx, 0x180(%rbx)
movq %r15, 0x178(%rbx)
incq 0x128(%rbx)
movq 0x8(%rsp), %rsi
jmp 0x1c1960
incb %cl
movb %cl, (%rax,%r15)
jmp 0x1c1960
movq 0x160(%rbx), %rdi
movq %r15, 0x10(%rsp)
leaq 0x10(%rsp), %rsi
callq 0x1012ee
incq 0x138(%rbx)
testq %rax, %rax
je 0x1c199e
addq $0x8, %rax
movl (%rax), %ecx
cmpl $-0x1, %ecx
je 0x1c199e
incl %ecx
movl %ecx, (%rax)
movq %r15, 0x178(%rbx)
movq %rax, 0x180(%rbx)
movq 0x8(%rsp), %rsi
incq 0x130(%rbx)
incq %r12
addq $0x8, %r13
cmpq %rsi, %r13
ja 0x1c1975
cmpq %r14, %rbp
jbe 0x1c1844
addq (%rbx), %r12
movq %r12, (%rbx)
cmpq 0x20(%rbx), %r12
jne 0x1c19ad
incl 0x70(%rbx)
movq $0x0, 0xc0(%rbx)
addq $0x28, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
callq 0x68c96
callq 0x68d3f
callq 0x68d06
callq 0x68ccd
callq 0x68c5f
// File: /workspace/github_c_makefile_star2_O3/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 0x1c19b7
testl %eax, %eax
jne 0x1c1f07
xorl %eax, %eax
addq $0x58, %rsp
popq %rbx
popq %rbp
retq
callq 0x69059
// File: /workspace/github_c_makefile_star2_O3/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 0x1c1f52
movq %rsi, %rbx
movl $0x1, %edi
callq 0x11f81a
movl $0x8, %edi
movq %rbx, %rsi
callq 0x11f81a
leaq 0x8(%rsp), %rdi
movl $0x8, %esi
movl $0x1, %edx
movq %rbx, %rcx
callq 0x11f89c
addq $0x10, %rsp
popq %rbx
retq
callq 0x69092