Bubberstation/code/controllers/subsystem/atoms.dm

SUBSYSTEM_DEF(atoms)
	name = "Atoms"
	dependencies = list(
		/datum/controller/subsystem/processing/reagents,
		/datum/controller/subsystem/fluids,
		/datum/controller/subsystem/mapping,
		/datum/controller/subsystem/job,
	)
	ss_flags = SS_NO_FIRE

	/// A stack of list(source, desired initialized state)
	/// We read the source of init changes from the last entry, and assert that all changes will come with a reset
	var/list/initialized_state = list()
	var/base_initialized

	var/list/late_loaders = list()

	var/list/BadInitializeCalls = list()

	///initAtom() adds the atom its creating to this list iff InitializeAtoms() has been given a list to populate as an argument
	var/list/created_atoms

	/// Atoms that will be deleted once the subsystem is initialized
	var/list/queued_deletions = list()

	var/init_start_time

	#ifdef PROFILE_MAPLOAD_INIT_ATOM
	var/list/mapload_init_times = list()
	#endif

	initialized = INITIALIZATION_INSSATOMS

/datum/controller/subsystem/atoms/Initialize()
	init_start_time = world.time
	setupGenetics() //to set the mutations' sequence

	initialized = INITIALIZATION_INNEW_MAPLOAD
	InitializeAtoms()
	initialized = INITIALIZATION_INNEW_REGULAR

	return SS_INIT_SUCCESS

/datum/controller/subsystem/atoms/proc/InitializeAtoms(list/atoms, list/atoms_to_return)
	if(initialized == INITIALIZATION_INSSATOMS)
		return

	// Generate a unique mapload source for this run of InitializeAtoms
	var/static/uid = 0
	uid = WRAP_UID(uid + 1)
	var/source = "subsystem init [uid]"
	set_tracked_initalized(INITIALIZATION_INNEW_MAPLOAD, source)

	// This may look a bit odd, but if the actual atom creation runtimes for some reason, we absolutely need to set initialized BACK
	CreateAtoms(atoms, atoms_to_return, source)
	clear_tracked_initalize(source)
	SSicon_smooth.free_deferred(source)

	if(late_loaders.len)
		for(var/I in 1 to late_loaders.len)
			var/atom/A = late_loaders[I]
			//I hate that we need this
			if(QDELETED(A))
				continue
			A.LateInitialize()
		testing("Late initialized [late_loaders.len] atoms")
		late_loaders.Cut()

	if (created_atoms)
		atoms_to_return += created_atoms
		created_atoms = null

	for (var/queued_deletion in queued_deletions)
		qdel(queued_deletion)

	testing("[queued_deletions.len] atoms were queued for deletion.")
	queued_deletions.Cut()

	#ifdef PROFILE_MAPLOAD_INIT_ATOM
	rustg_file_write(json_encode(mapload_init_times), "[GLOB.log_directory]/init_times.json")
	#endif

/// Actually creates the list of atoms. Exists solely so a runtime in the creation logic doesn't cause initialized to totally break
/datum/controller/subsystem/atoms/proc/CreateAtoms(list/atoms, list/atoms_to_return = null, mapload_source = null)
	if (atoms_to_return)
		LAZYINITLIST(created_atoms)

	#ifdef TESTING
	var/count
	#endif

	var/list/mapload_arg = list(TRUE)

	if(atoms)
		#ifdef TESTING
		count = atoms.len
		#endif

		for(var/I in 1 to atoms.len)
			var/atom/A = atoms[I]
			if(!(A.flags_1 & INITIALIZED_1))
				// Unrolled CHECK_TICK setup to let us enable/disable mapload based off source
				if(TICK_CHECK)
					clear_tracked_initalize(mapload_source)
					stoplag()
					if(mapload_source)
						set_tracked_initalized(INITIALIZATION_INNEW_MAPLOAD, mapload_source)
				PROFILE_INIT_ATOM_BEGIN()
				InitAtom(A, TRUE, mapload_arg)
				PROFILE_INIT_ATOM_END(A)
	else
		#ifdef TESTING
		count = 0
		#endif

		for(var/atom/A as anything in world)
			if(!(A.flags_1 & INITIALIZED_1))
				PROFILE_INIT_ATOM_BEGIN()
				InitAtom(A, FALSE, mapload_arg)
				PROFILE_INIT_ATOM_END(A)
				#ifdef TESTING
				++count
				#endif
				if(TICK_CHECK)
					clear_tracked_initalize(mapload_source)
					stoplag()
					if(mapload_source)
						set_tracked_initalized(INITIALIZATION_INNEW_MAPLOAD, mapload_source)

	testing("Initialized [count] atoms")

/datum/controller/subsystem/atoms/proc/map_loader_begin(source)
	set_tracked_initalized(INITIALIZATION_INSSATOMS, source)

/datum/controller/subsystem/atoms/proc/map_loader_stop(source)
	clear_tracked_initalize(source)

/// Returns the source currently modifying SSatom's init behavior
/datum/controller/subsystem/atoms/proc/get_initialized_source()
	var/state_length = length(initialized_state)
	if(!state_length)
		return null
	return initialized_state[state_length][1]

/// Use this to set initialized to prevent error states where the old initialized is overridden, and we end up losing all context
/// Accepts a state and a source, the most recent state is used, sources exist to prevent overriding old values accidentally
/datum/controller/subsystem/atoms/proc/set_tracked_initalized(state, source)
	if(!length(initialized_state))
		base_initialized = initialized
	initialized_state += list(list(source, state))
	initialized = state

/datum/controller/subsystem/atoms/proc/clear_tracked_initalize(source)
	if(!length(initialized_state))
		return
	for(var/i in length(initialized_state) to 1 step -1)
		if(initialized_state[i][1] == source)
			initialized_state.Cut(i, i+1)
			break

	if(!length(initialized_state))
		initialized = base_initialized
		base_initialized = INITIALIZATION_INNEW_REGULAR
		return

	initialized = initialized_state[length(initialized_state)][2]

/// Returns TRUE if anything is currently being initialized
/datum/controller/subsystem/atoms/proc/initializing_something()
	return length(initialized_state) > 1

/datum/controller/subsystem/atoms/Recover()
	initialized = SSatoms.initialized
	if(initialized == INITIALIZATION_INNEW_MAPLOAD)
		InitializeAtoms()
	initialized_state = SSatoms.initialized_state
	BadInitializeCalls = SSatoms.BadInitializeCalls

/datum/controller/subsystem/atoms/proc/setupGenetics()
	var/list/mutations = subtypesof(/datum/mutation)
	shuffle_inplace(mutations)
	for(var/i in 1 to LAZYLEN(mutations))
		var/path = mutations[i] //byond gets pissy when we do it in one line
		var/datum/mutation/B = new path ()
		B.alias = "Mutation [i]"
		GLOB.all_mutations[B.type] = B
		GLOB.full_sequences[B.type] = generate_gene_sequence(B.blocks)
		GLOB.alias_mutations[B.alias] = B.type
		if(B.locked)
			continue
		if(B.quality == POSITIVE)
			GLOB.good_mutations |= B
		else if(B.quality == NEGATIVE)
			GLOB.bad_mutations |= B
		else if(B.quality == MINOR_NEGATIVE)
			GLOB.not_good_mutations |= B
		CHECK_TICK

/datum/controller/subsystem/atoms/proc/InitLog()
	. = ""
	for(var/path in BadInitializeCalls)
		. += "Path : [path] \n"
		var/fails = BadInitializeCalls[path]
		if(fails & BAD_INIT_DIDNT_INIT)
			. += "- Didn't call atom/Initialize(mapload)\n"
		if(fails & BAD_INIT_NO_HINT)
			. += "- Didn't return an Initialize hint\n"
		if(fails & BAD_INIT_QDEL_BEFORE)
			. += "- Qdel'd before Initialize proc ran\n"
		if(fails & BAD_INIT_SLEPT)
			. += "- Slept during Initialize()\n"

/// Prepares an atom to be deleted once the atoms SS is initialized.
/datum/controller/subsystem/atoms/proc/prepare_deletion(atom/target)
	if (initialized == INITIALIZATION_INNEW_REGULAR)
		// Atoms SS has already completed, just kill it now.
		qdel(target)
	else
		queued_deletions += WEAKREF(target)

/datum/controller/subsystem/atoms/Shutdown()
	var/initlog = InitLog()
	if(initlog)
		text2file(initlog, "[GLOB.log_directory]/initialize.log")