// File: /workspace/github_cpp_makefile_star2_O3/chhylp123[P]hifiasm/Assembly.cpp
// Function: Output_PAF0(ma_hit_t_alloc*, char const*)
void Output_PAF0(ma_hit_t_alloc* sources, const char *prefix)
{
    fprintf(stderr, "Writing PAF to disk ...... \n");
    char* paf_name = (char*)malloc(strlen(asm_opt.output_file_name)+strlen(prefix)+50);
    sprintf(paf_name, "%s.%s.ovlp.paf", asm_opt.output_file_name, prefix);
    FILE* output_file = fopen(paf_name, "w");
    uint64_t i, j;

    for (i = 0; i < R_INF.total_reads; i++)
    {
        for (j = 0; j < sources[i].length; j++)
        {
            fwrite(Get_NAME(R_INF, Get_qn(sources[i].buffer[j])), 1, 
            Get_NAME_LENGTH(R_INF, Get_qn(sources[i].buffer[j])), output_file);
            fwrite("\t", 1, 1, output_file);
            fprintf(output_file, "%lu\t", (unsigned long)Get_READ_LENGTH(R_INF, Get_qn(sources[i].buffer[j])));
            fprintf(output_file, "%d\t", Get_qs(sources[i].buffer[j]));
            fprintf(output_file, "%d\t", Get_qe(sources[i].buffer[j]));
            if(sources[i].buffer[j].rev)
            {
                fprintf(output_file, "-\t");
            }
            else
            {
                fprintf(output_file, "+\t");
            }
            fwrite(Get_NAME(R_INF, Get_tn(sources[i].buffer[j])), 1, 
            Get_NAME_LENGTH(R_INF, Get_tn(sources[i].buffer[j])), output_file);
            fwrite("\t", 1, 1, output_file);
            fprintf(output_file, "%lu\t", (unsigned long)Get_READ_LENGTH(R_INF, Get_tn(sources[i].buffer[j])));
            fprintf(output_file, "%d\t", Get_ts(sources[i].buffer[j]));
            fprintf(output_file, "%d\t", Get_te(sources[i].buffer[j]));
            fprintf(output_file, "%d\t", sources[i].buffer[j].ml);
            fprintf(output_file, "%d\t", sources[i].buffer[j].bl);
            fprintf(output_file, "255\n");

        }
    }

    free(paf_name);
    fclose(output_file);

    fprintf(stderr, "PAF has been written.\n");
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x18, %rsp
movq %rsi, %rbx
movq %rdi, %r13
movq 0x2910b6(%rip), %rax    # 0x294fe0
movq (%rax), %rcx
leaq 0x22cf0e(%rip), %rdi    # 0x230e42
pushq $0x1c
popq %rsi
pushq $0x1
popq %rdx
callq 0x2410
leaq 0x291812(%rip), %rax    # 0x295758
movq 0x10(%rax), %r14
movq %r14, %rdi
callq 0x2090
movq %rax, %r15
movq %rbx, %rdi
callq 0x2090
leaq (%r15,%rax), %rdi
addq $0x32, %rdi
callq 0x2280
movq %rax, %r15
leaq 0x22cf0c(%rip), %rsi    # 0x230e80
movq %rax, %rdi
movq %r14, %rdx
movq %rbx, %rcx
xorl %eax, %eax
callq 0x2050
leaq 0x244757(%rip), %rsi    # 0x2486e2
movq %r15, (%rsp)
movq %r15, %rdi
callq 0x2210
movq %rax, %r15
movq 0x2922df(%rip), %rax    # 0x296280
testq %rax, %rax
je 0x418b
xorl %r11d, %r11d
movq %r13, 0x8(%rsp)
pushq $0x1
popq %r12
imulq $0x18, %r11, %rbx
cmpl $0x0, 0xc(%r13,%rbx)
je 0x417f
movq %r11, 0x10(%rsp)
addq %r13, %rbx
xorl %ebp, %ebp
xorl %r13d, %r13d
movq 0x292296(%rip), %rax    # 0x296270
movq (%rbx), %rcx
movq (%rcx,%rbp), %rcx
shrq $0x20, %rcx
movq (%rax,%rcx,8), %rsi
movq 0x292248(%rip), %rdi    # 0x296238
addq %rsi, %rdi
incl %ecx
movq (%rax,%rcx,8), %rdx
subq %rsi, %rdx
pushq $0x1
popq %rsi
movq %r15, %rcx
callq 0x2410
pushq $0x9
popq %rdi
movq %r15, %rsi
callq 0x2270
movq 0x29222f(%rip), %rax    # 0x296248
movq (%rbx), %rcx
movl 0x4(%rcx,%rbp), %ecx
movq (%rax,%rcx,8), %rdx
movq %r15, %rdi
leaq 0x23b77d(%rip), %rsi    # 0x23f7ab
xorl %eax, %eax
callq 0x22b0
movq (%rbx), %rax
movl (%rax,%rbp), %edx
movq %r15, %rdi
leaq 0x22ce1a(%rip), %r14    # 0x230e5f
movq %r14, %rsi
xorl %eax, %eax
callq 0x22b0
movq (%rbx), %rax
movl 0x8(%rax,%rbp), %edx
movq %r15, %rdi
movq %r14, %rsi
xorl %eax, %eax
callq 0x22b0
movq (%rbx), %rax
cmpl $0x0, 0x18(%rax,%rbp)
leaq 0x22cdf1(%rip), %rdi    # 0x230e63
leaq 0x22cded(%rip), %rax    # 0x230e66
cmovnsq %rax, %rdi
pushq $0x2
popq %rsi
movq %r12, %rdx
movq %r15, %rcx
callq 0x2410
movq 0x2921de(%rip), %rax    # 0x296270
movq (%rbx), %rcx
movl 0xc(%rcx,%rbp), %ecx
movq (%rax,%rcx,8), %rsi
movq 0x292194(%rip), %rdi    # 0x296238
addq %rsi, %rdi
incl %ecx
movq (%rax,%rcx,8), %rdx
subq %rsi, %rdx
movq %r12, %rsi
movq %r15, %rcx
callq 0x2410
pushq $0x9
popq %rdi
movq %r15, %rsi
callq 0x2270
movq 0x29217b(%rip), %rax    # 0x296248
movq (%rbx), %rcx
movl 0xc(%rcx,%rbp), %ecx
movq (%rax,%rcx,8), %rdx
movq %r15, %rdi
leaq 0x23b6c9(%rip), %rsi    # 0x23f7ab
xorl %eax, %eax
callq 0x22b0
movq (%rbx), %rax
movl 0x10(%rax,%rbp), %edx
movq %r15, %rdi
movq %r14, %rsi
xorl %eax, %eax
callq 0x22b0
movq (%rbx), %rax
movl 0x14(%rax,%rbp), %edx
movq %r15, %rdi
movq %r14, %rsi
xorl %eax, %eax
callq 0x22b0
movq (%rbx), %rax
movl 0x18(%rax,%rbp), %edx
shrl $0x1e, %edx
andl $0x1, %edx
movq %r15, %rdi
movq %r14, %rsi
xorl %eax, %eax
callq 0x22b0
movq (%rbx), %rax
movl 0x1c(%rax,%rbp), %edx
movl $0x7fffffff, %eax       # imm = 0x7FFFFFFF
andl %eax, %edx
movq %r15, %rdi
movq %r14, %rsi
xorl %eax, %eax
callq 0x22b0
leaq 0x234f28(%rip), %rdi    # 0x239075
pushq $0x4
popq %rsi
movq %r12, %rdx
movq %r15, %rcx
callq 0x2410
incq %r13
movl 0xc(%rbx), %eax
addq $0x28, %rbp
cmpq %rax, %r13
jb 0x3fd3
movq 0x29210b(%rip), %rax    # 0x296280
movq 0x8(%rsp), %r13
movq 0x10(%rsp), %r11
incq %r11
cmpq %rax, %r11
jb 0x3fb6
movq (%rsp), %rdi
callq 0x2220
movq %r15, %rdi
callq 0x2190
movq 0x290e3d(%rip), %rax    # 0x294fe0
movq (%rax), %rcx
leaq 0x22ccbc(%rip), %rdi    # 0x230e69
pushq $0x16
popq %rsi
pushq $0x1
popq %rdx
addq $0x18, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
jmp 0x2410