// File: /workspace/github_c_makefile_star2_O3/felipelouza[P]lyndon-array/lib/lyndon-array.c
// Function: compute_lyndon_bwt_10n
int compute_lyndon_bwt_10n(unsigned char *s, int_t *A, int_t n){

int_t i;

	#if TIME
		time_t t_total= 0;clock_t c_total= 0;
		tstart(&t_total, &c_total); 
	#endif

	#if STEP_TIME
		time_t t_time = 0;clock_t c_time = 0;
		tstart(&t_time, &c_time); 
		printf("1. SA construction:\n");
	#endif
	
	// 1. sort
	#if PERMUTED  	//1. uses 1 array for SA -> LF -> pLA
		int_t *SA = A;
	#else		//0. uses 2 arrays, SA -> LF, and LA
		int_t *SA = (int_t*) malloc(n*sizeof(int_t));
	#endif

	sacak(s, SA, n);

	#if STEP_TIME
		fprintf(stderr,"%.6lf\n", tstop(t_time, c_time));
		tstart(&t_time, &c_time);
		printf("2. Obtain BWT:\n"); 
	#endif

	//2. compute BWT
	unsigned char* bwt = malloc(n*sizeof(unsigned char));
	for(i=0; i<n; i++){
		bwt[i] = (SA[i])?s[SA[i]-1]:0;
	}	

	#if STEP_TIME
		fprintf(stderr,"%.6lf\n", tstop(t_time, c_time));
		tstart(&t_time, &c_time);
		printf("3. Compute LF:\n"); 
	#endif

	//3. compute LF-array (in the space of SA[0,n-1])
	int_t *LF = SA;
	int_t *C = (int_t*) malloc(SIGMA*sizeof(int_t));

	//counter
	for(i=0; i<SIGMA; i++) C[i]=0;
	for(i=0; i<n; i++) C[bwt[i]]++;

	int_t sum=0;
	for(i=0; i<SIGMA; i++){
		sum+=C[i]; C[i]=sum-C[i];
	}

	for(i=0; i<n; i++){
		LF[i] = C[bwt[i]]++;
	}

	#if STEP_TIME
		fprintf(stderr,"%.6lf\n", tstop(t_time, c_time));
		tstart(&t_time, &c_time);
		printf("4. Compute Lyndon:\n");
	#endif

	//BWT-inversion and Lyndon array construction
	stack_pair S;
	S.top=0; S.size=STACK_SIZE;
	stack_pair_init(&S,STACK_SIZE);
	stack_pair_push(&S, 0, 0);//(0, 0)

	#if PRINT
		printf("step\tpos\tT^{rev}\tLyndon\n");
	#endif

	int_t *LA = A;

	int_t pos = 0;
	int_t step = 1;//(n-1)-i

	for(i=n-1; i >= 0; i--){	

		while(stack_pair_top(&S).i > pos) stack_pair_pop(&S);

		int_t next = LF[pos];

		#if PERMUTED
			LA[pos] = step-stack_pair_top(&S).j;
		#else
			LA[i] = step-stack_pair_top(&S).j;
		#endif

		#if PRINT
			printf("%d\t%d\t%c\t%d\n", step, pos, bwt[pos], step-stack_pair_top(&S).j);
		#endif

		stack_pair_push(&S, pos, step++);

		pos = next; //pos = LF(pos)
	}

	#if STEP_TIME
		fprintf(stderr,"%.6lf\n", tstop(t_time, c_time));
	#endif

	#if TIME
		printf("TOTAL:\n");
		fprintf(stderr,"%.6lf\n", tstop(t_total, c_total)); 
	#endif

	free(S.array);
	free(C);
	free(bwt);

	#if PERMUTED == 0
		free(SA);
	#endif

return 0;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x48, %rsp
movl %edx, %ebp
movq %rsi, 0x40(%rsp)
movq %rdi, %r12
xorl %edi, %edi
callq 0x21b0
movq %rax, %rbx
callq 0x20a0
movq %rax, 0x28(%rsp)
movslq %ebp, %r14
leaq (,%r14,4), %rdi
callq 0x855a
movq %r12, %rdi
movq %rax, 0x10(%rsp)
movq %rax, %rsi
movl %r14d, %edx
callq 0x83c9
movq %r14, %rdi
callq 0x855a
movq %rax, %r15
movl %ebp, 0xc(%rsp)
movl %ebp, %r13d
testl %r14d, %r14d
jle 0x25e1
xorl %eax, %eax
movq 0x10(%rsp), %rdx
movslq (%rdx,%rax,4), %rcx
testq %rcx, %rcx
je 0x25a7
movb -0x1(%r12,%rcx), %cl
jmp 0x25a9
xorl %ecx, %ecx
movb %cl, (%r15,%rax)
incq %rax
cmpq %rax, %r13
jne 0x2597
pushq $0x1
popq %rdi
movl $0x400, %esi            # imm = 0x400
callq 0x86b3
movq %rax, %r12
cmpl $0x0, 0xc(%rsp)
jle 0x25f1
xorl %eax, %eax
movzbl (%r15,%rax), %ecx
incl (%r12,%rcx,4)
incq %rax
cmpq %rax, %r13
jne 0x25ce
jmp 0x25f1
pushq $0x1
popq %rdi
movl $0x400, %esi            # imm = 0x400
callq 0x86b3
movq %rax, %r12
movq 0x10(%rsp), %rdi
pushq $0x1
popq %rbp
xorl %eax, %eax
xorl %ecx, %ecx
movl (%r12,%rax,4), %edx
addl %ecx, %edx
movl %ecx, (%r12,%rax,4)
incq %rax
movl %edx, %ecx
cmpq $0x100, %rax            # imm = 0x100
jne 0x25fd
cmpl $0x0, 0xc(%rsp)
jle 0x2723
xorl %eax, %eax
movzbl (%r15,%rax), %ecx
movl (%r12,%rcx,4), %edx
leal 0x1(%rdx), %esi
movl %esi, (%r12,%rcx,4)
movl %edx, (%rdi,%rax,4)
incq %rax
cmpq %rax, %r13
jne 0x2621
movl $0x2800, %edi           # imm = 0x2800
callq 0x855a
movq %rax, %r8
andq $0x0, (%rax)
cmpl $0x0, 0xc(%rsp)
jle 0x271e
movq %r15, 0x18(%rsp)
movq %rbx, 0x20(%rsp)
movl $0x500, %esi            # imm = 0x500
pushq $0x1
popq %r15
xorl %r9d, %r9d
movq 0x10(%rsp), %rdx
movq %r14, %rdi
movl %r9d, %ebx
movslq %ebp, %r13
leaq (%r8,%r13,8), %rcx
addq $-0x8, %rcx
xorl %r14d, %r14d
movq (%rcx,%r14,8), %rax
decq %r14
cmpl %eax, %ebx
jl 0x2687
notl %ebp
addl %esi, %ebp
movslq %ebx, %rcx
movl (%rdx,%rcx,4), %r9d
shrq $0x20, %rax
movl %r15d, %ecx
subl %eax, %ecx
movq 0x40(%rsp), %rax
movl %ecx, -0x4(%rax,%rdi,4)
cmpl %r14d, %ebp
jne 0x26e9
addl $0x500, %esi            # imm = 0x500
movl %esi, %ebp
movslq %esi, %rsi
shlq $0x3, %rsi
movq %rdi, 0x38(%rsp)
movq %r8, %rdi
movq %r9, 0x30(%rsp)
callq 0x86da
movq 0x30(%rsp), %r9
movl %ebp, %esi
movq 0x38(%rsp), %rdi
movq 0x10(%rsp), %rdx
movq %rax, %r8
decq %rdi
leaq (%r8,%r13,8), %rax
movl %ebx, 0x8(%rax,%r14,8)
movl %r15d, 0xc(%rax,%r14,8)
leal 0x1(%r15), %eax
leaq (%r14,%r13), %rbp
addq $0x2, %rbp
cmpl 0xc(%rsp), %r15d
movl %eax, %r15d
jne 0x2676
movq 0x20(%rsp), %rbx
movq 0x18(%rsp), %r15
movq %r8, %r13
jmp 0x2734
movl $0x2800, %edi           # imm = 0x2800
callq 0x855a
movq %rax, %r13
andq $0x0, (%rax)
leaq 0x6e9e(%rip), %rdi      # 0x95d9
callq 0x2080
movq 0xa8b1(%rip), %rax      # 0xcff8
movq (%rax), %r14
movq %rbx, %rdi
movq 0x28(%rsp), %rsi
callq 0x589a
leaq 0x6ca9(%rip), %rsi      # 0x9407
movq %r14, %rdi
movb $0x1, %al
callq 0x2180
movq %r13, %rdi
callq 0x8611
movq %r12, %rdi
callq 0x8611
movq %r15, %rdi
callq 0x8611
movq 0x10(%rsp), %rdi
callq 0x8611
xorl %eax, %eax
addq $0x48, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq