Genetic Code

The mapping between the binary representation of the genome and the instructions in the REPLiCa programming language is specified in the input file genetic_code.ini (see Section A.5.1). In the current implementation of the system, each instruction is represented by a six-bit `codon'. The mapping used for the runs reported in Chapters 5 and 6 is shown in Table B.4. All 62 of the REPLiCa instructions appear once in this mapping except the move instruction, which appears three times (codons 110111, 011111 and 111111).

 

Table B.4: Genetic Code for Runs in Chapters 5 and 6.

Codon	Instruction	Codon	Instruction	Codon	Instruction
000000	push_a	011010	if_not_fl	110101	reg_create
100000	push_c	111010	if_z	001101	nop_00
010000	pop_a	000110	stop	101101	nop_01
110000	pop_c	100110	set_jmp	011101	nop_10
001000	swap_ab	010110	clr_jmp	111101	nop_11
101000	swap_cd	110110	jmp	000011	adr
011000	mov_ic	001110	nwm_clear	100011	adrf
111000	clr_f	101110	nwm_write	010011	adrb
000100	inc_a	011110	nwm_write_bit	110011	str_switch
100100	inc_c	111110	nwm_divide	001011	str_switchf
010100	dec_c	000001	nwm_split	101011	str_switchb
110100	add_cd	100001	cwm_clear	011011	str_host
001100	sub_cd	010001	cwm_write	111011	str_latest
101100	sub_ab	110001	cwm_write_bit	000111	str_next
011100	zero_c	001001	cwm_send	100111	str_previous
111100	not_c	101001	rms_receive	010111	str_remove
000010	and_cd	011001	et_collect	110111	move
100010	or_cd	111001	et_transport	001111	migrate
010010	shl_c	000101	et_check	101111	kill
110010	shr_c	100101	reg_destroy	011111	move
001010	not_lo_c	010101	reg_transport	111111	move
101010	if_fl