// File: /workspace/github_cpp_makefile_star2_O3/millanek[P]evo/evo_abba_baba.cpp
// Function: parseAbbaBabaOptions(int, char**)
void parseAbbaBabaOptions(int argc, char** argv) {
    bool die = false;
    for (char c; (c = getopt_long(argc, argv, shortopts, longopts, NULL)) != -1;)
    {
        std::istringstream arg(optarg != NULL ? optarg : "");
        switch (c)
        {
            case '?': die = true; break;
            case 's': arg >> opt::sampleNameFile; break;
            case 'f': opt::bFrequency = true; opt::jackKniveWindowSize = JACKKNIVE_WINDOW_SIZE_FREQUENCY; break;
            case 'w': arg >> opt::windowSize; break;
            case 'n': arg >> opt::runName; break;
            case OPT_AA_EQ_O: opt::bAaEqO = true; break;
            case OPT_NO_AA_O: opt::bNoAaO = true; break;
            case 'h':
                std::cout << ABBA_USAGE_MESSAGE;
                exit(EXIT_SUCCESS);
        }
    }
    
    if (opt::runName == "") {
        if (opt::bFrequency) { opt::runName = "frequency"; }
        if (!opt::bFrequency) { opt::runName = "sequence"; }
    }
    if (argc - optind < 2) {
        std::cerr << "missing arguments\n";
        die = true;
    }
    else if (argc - optind > 2)
    {
        std::cerr << "too many arguments\n";
        die = true;
    }
    
    if (die) {
        std::cout << "\n" << ABBA_USAGE_MESSAGE;
        exit(EXIT_FAILURE);
    }
    
    // Parse the input filenames
    opt::vcfFile = argv[optind++];
    opt::setsFile = argv[optind++];
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x1b8, %rsp            # imm = 0x1B8
movl %edi, %ebp
leaq 0x96257(%rip), %rdx     # 0xcca98
leaq 0xc8e28(%rip), %rcx     # 0xff670
movq $0x0, 0x8(%rsp)
movq %rsi, 0x10(%rsp)
xorl %r8d, %r8d
callq 0x8770
movl %eax, %r14d
shll $0x18, %r14d
cmpl $0xff000000, %r14d      # imm = 0xFF000000
je 0x369d5
leaq 0x28(%rsp), %rbx
movq $0x0, 0x8(%rsp)
leaq 0x18(%rsp), %r15
leaq 0x38(%rsp), %r12
movq 0xcb6ef(%rip), %rax     # 0x101f80
movq (%rax), %r13
testq %r13, %r13
leaq 0x9712d(%rip), %rax     # 0xcd9cb
cmoveq %rax, %r13
movq %rbx, 0x18(%rsp)
movq %r13, %rdi
callq 0x81f0
leaq (%rax,%r13), %rdx
movq %r15, %rdi
movq %r13, %rsi
callq 0x28a52
movq %r12, %rdi
movq %r15, %rsi
movl $0x8, %edx
callq 0x87b0
movq 0x18(%rsp), %rdi
cmpq %rbx, %rdi
je 0x368e5
movq 0x28(%rsp), %rsi
incq %rsi
callq 0x8480
sarl $0x18, %r14d
cmpl $0x67, %r14d
jg 0x3690d
cmpl $0x3e, %r14d
jg 0x36930
testl %r14d, %r14d
je 0x36967
cmpl $0x1, %r14d
jne 0x36988
movb $0x1, 0xcc083(%rip)     # 0x10298e
jmp 0x36988
cmpl $0x72, %r14d
jle 0x3694f
cmpl $0x73, %r14d
je 0x36979
cmpl $0x77, %r14d
jne 0x36988
movq %r12, %rdi
leaq 0xcbb8b(%rip), %rsi     # 0x1024b4
callq 0x82b0
jmp 0x36988
cmpl $0x3f, %r14d
je 0x36970
cmpl $0x66, %r14d
jne 0x36988
movb $0x1, 0xcc04a(%rip)     # 0x10298d
movl $0x1388, 0xcbb63(%rip)  # imm = 0x1388
jmp 0x36988
leaq 0xcbfea(%rip), %rsi     # 0x102940
cmpl $0x6e, %r14d
je 0x36980
cmpl $0x68, %r14d
jne 0x36988
jmp 0x36ae8
movb $0x1, 0xcc01e(%rip)     # 0x10298c
jmp 0x36988
movb $0x1, %al
movq %rax, 0x8(%rsp)
jmp 0x36988
leaq 0xcbfa0(%rip), %rsi     # 0x102920
movq %r12, %rdi
callq 0x8560
movq %r12, %rdi
movq 0xcb606(%rip), %rsi     # 0x101f98
callq 0x8620
leaq 0xb0(%rsp), %rdi
callq 0x8190
movl %ebp, %edi
movq 0x10(%rsp), %rsi
leaq 0x960e6(%rip), %rdx     # 0xcca98
leaq 0xc8cb7(%rip), %rcx     # 0xff670
xorl %r8d, %r8d
callq 0x8770
movl %eax, %r14d
shll $0x18, %r14d
cmpl $0xff000000, %r14d      # imm = 0xFF000000
jne 0x3688a
leaq 0xcbf64(%rip), %rdi     # 0x102940
leaq 0x96fe8(%rip), %rsi     # 0xcd9cb
callq 0x8160
testl %eax, %eax
jne 0x36a42
cmpb $0x1, 0xcbf9a(%rip)     # 0x10298d
jne 0x36a20
movq 0xcbf4c(%rip), %rdx     # 0x102948
leaq 0xcbf3d(%rip), %rdi     # 0x102940
leaq 0x9f5ce(%rip), %rcx     # 0xd5fd8
movl $0x9, %r8d
xorl %esi, %esi
callq 0x86c0
cmpb $0x0, 0xcbf6f(%rip)     # 0x10298d
jne 0x36a42
movq 0xcbf21(%rip), %rdx     # 0x102948
leaq 0xcbf12(%rip), %rdi     # 0x102940
leaq 0x95fa9(%rip), %rcx     # 0xcc9de
movl $0x8, %r8d
xorl %esi, %esi
callq 0x86c0
movq 0xcb577(%rip), %rbx     # 0x101fc0
movslq (%rbx), %rax
subl %eax, %ebp
cmpl $0x2, %ebp
jl 0x36b02
jne 0x36b10
testb $0x1, 0x8(%rsp)
jne 0x36b28
leal 0x1(%rax), %ecx
movl %ecx, (%rbx)
movq 0x10(%rsp), %r13
movq (%r13,%rax,8), %r14
movq 0xcbe6a(%rip), %r15     # 0x1028e8
leaq 0xcbe5b(%rip), %r12     # 0x1028e0
movq %r14, %rdi
callq 0x81f0
movq %r12, %rdi
xorl %esi, %esi
movq %r15, %rdx
movq %r14, %rcx
movq %rax, %r8
callq 0x86c0
movslq (%rbx), %rax
leal 0x1(%rax), %ecx
movl %ecx, (%rbx)
movq (%r13,%rax,8), %rbx
movq 0xcbe54(%rip), %r14     # 0x102908
leaq 0xcbe45(%rip), %r15     # 0x102900
movq %rbx, %rdi
callq 0x81f0
movq %r15, %rdi
xorl %esi, %esi
movq %r14, %rdx
movq %rbx, %rcx
movq %rax, %r8
callq 0x86c0
addq $0x1b8, %rsp            # imm = 0x1B8
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
movq 0xcb4c9(%rip), %rdi     # 0x101fb8
leaq 0x95fcf(%rip), %rsi     # 0xccac5
callq 0x8460
xorl %edi, %edi
callq 0x8530
leaq 0x953d9(%rip), %rsi     # 0xcbee2
movl $0x12, %edx
jmp 0x36b1c
leaq 0x953de(%rip), %rsi     # 0xcbef5
movl $0x13, %edx
movq 0xcb4c5(%rip), %rdi     # 0x101fe8
callq 0x84e0
movq 0xcb489(%rip), %rdi     # 0x101fb8
leaq 0x94907(%rip), %rsi     # 0xcb43d
callq 0x8460
leaq 0x95f83(%rip), %rsi     # 0xccac5
movq %rax, %rdi
callq 0x8460
movl $0x1, %edi
callq 0x8530
jmp 0x36b56
movq %rax, %r14
movq 0xcb438(%rip), %rsi     # 0x101f98
leaq 0x38(%rsp), %rdi
callq 0x8620
leaq 0xb0(%rsp), %rdi
callq 0x8190
jmp 0x36b98
movq %rax, %r14
jmp 0x36b98
movq %rax, %r14
movq 0x18(%rsp), %rdi
cmpq %rbx, %rdi
je 0x36b98
movq 0x28(%rsp), %rsi
incq %rsi
callq 0x8480
movq %r14, %rdi
callq 0x8840