def __init__(self, _pymol, _COb):
# store parent
self._pymol = _pymol
# store C object for easy access
self._COb = _COb
# private data
self.color_sc = None
self.reaper = None
# CONSTANTS (pymol/constants.py)
self.DEFAULT_ERROR = global_cmd.DEFAULT_ERROR
self.DEFAULT_SUCCESS = global_cmd.DEFAULT_SUCCESS
self.QuietException = global_cmd.QuietException
self.Shortcut = global_cmd.Shortcut
self._load2str = global_cmd._load2str
self.boolean_dict = global_cmd.boolean_dict
self.boolean_sc = global_cmd.boolean_sc
self.fb_action = global_cmd.fb_action
self.fb_mask = global_cmd.fb_mask
self.fb_module = global_cmd.fb_module
self.fb_debug = global_cmd.fb_debug # this cannot be right...
self.file_ext_re = global_cmd.file_ext_re
self.gz_ext_re = global_cmd.gz_ext_re
self.loadable = global_cmd.loadable
self.nt_hidden_path_re = global_cmd.nt_hidden_path_re
self.palette_dict = global_cmd.palette_dict
self.palette_sc = global_cmd.palette_sc
self.parsing = global_cmd.parsing
self.quote_alpha_list_re = global_cmd.quote_alpha_list_re
self.repres = global_cmd.repres
self.repres_sc = global_cmd.repres_sc
self.safe_alpha_list_eval = global_cmd.safe_alpha_list_eval
self.safe_list_eval = global_cmd.safe_list_eval
self.safe_oname_re = global_cmd.safe_oname_re
self.sanitize_alpha_list_re = global_cmd.sanitize_alpha_list_re
self.sanitize_list_re = global_cmd.sanitize_list_re
self.space_sc = global_cmd.space_sc
self.stereo_dict = global_cmd.stereo_dict
self.stereo_sc = global_cmd.stereo_sc
self.toggle_dict = global_cmd.toggle_dict
self.toggle_sc = global_cmd.toggle_sc
self.window_dict = global_cmd.window_dict
self.window_sc = global_cmd.window_sc
# GLOBAL FUNCTIONS
self.exp_path = global_cmd.exp_path
# deferred initiailization
global_cmd._deferred_init_pymol_internals(_pymol)
# PRIVATE FUNCTIONS (requiring '_self' as a keyword argument)
# locking.py
self.reaper = None
if 1:
# use own locks (for performance)
self.lock_api = _pymol.lock_api
self.lock_api_c = _pymol.lock_api_c
self.lock_api_data = _pymol.lock_api_data
self.lock_api_glut = _pymol.lock_api_glut
self.lock_api_status = _pymol.lock_api_status
else:
# use global locks (for debugging)
self.lock_api = global_cmd._pymol.lock_api
self.lock_api_c = global_cmd._pymol.lock_api_c
self.lock_api_data = global_cmd._pymol.lock_api_data
self.lock_api_glut = global_cmd._pymol.lock_api_glut
self.lock_api_status = global_cmd._pymol.lock_api_status
self.lock_api_allow_flush = 1
self.lock_c = global_cmd.lock_c
self.unlock_c = global_cmd.unlock_c
self.lock_data = global_cmd.lock_data
self.unlock_data = global_cmd.unlock_data
self.lock_status_attempt = global_cmd.lock_status_attempt
self.lock_status = global_cmd.lock_status
self.unlock_status = global_cmd.unlock_status
self.lock_glut = global_cmd.lock_glut
self.unlock_glut = global_cmd.unlock_glut
self.lock_without_glut = global_cmd.lock_without_glut
self.lock = global_cmd.lock
self.lock_attempt = global_cmd.lock_attempt
self.unlock = global_cmd.unlock
self.is_glut_thread = global_cmd.is_glut_thread
self.setup_global_locks = global_cmd.setup_global_locks
self.interrupt = global_cmd.interrupt
self.block_flush = global_cmd.block_flush
self.unblock_flush = global_cmd.unblock_flush
# pymol/checking.py
self._raising = global_cmd._raising
self.is_dict = global_cmd.is_dict
self.is_error = global_cmd.is_error
self.is_list = global_cmd.is_list
self.is_ok = global_cmd.is_ok
self.is_sequence = global_cmd.is_sequence
self.is_string = global_cmd.is_string
self.is_tuple = global_cmd.is_tuple
# from pymol/feedingback.py
self._feedback = global_cmd._feedback
# from pymol/internal.py
self._adjust_coord = global_cmd._adjust_coord
self._coordset_update_spawn = global_cmd._coordset_update_spawn
self._coordset_update_thread = global_cmd._coordset_update_thread
self._copy_image = global_cmd._copy_image
self._do = global_cmd._do
self._dump_floats = global_cmd._dump_floats
self._dump_ufloats = global_cmd._dump_ufloats
self._fake_drag = global_cmd._fake_drag
self._get_color_sc = global_cmd._get_color_sc
self._get_feedback = global_cmd._get_feedback
self._interpret_color = global_cmd._interpret_color
self._interpret_color = global_cmd._interpret_color
self._invalidate_color_sc = global_cmd._invalidate_color_sc
self._invalidate_color_sc = global_cmd._invalidate_color_sc
self._load = global_cmd._load
self._mpng = global_cmd._mpng
self._object_update_spawn = global_cmd._object_update_spawn
self._object_update_thread = global_cmd._object_update_thread
self._png = global_cmd._png
self._quit = global_cmd._quit
self._ray_anti_spawn = global_cmd._ray_anti_spawn
self._ray_hash_spawn = global_cmd._ray_hash_spawn
self._ray_spawn = global_cmd._ray_spawn
self._refresh = global_cmd._refresh
self._sgi_stereo = global_cmd._sgi_stereo
self._validate_color_sc = global_cmd._validate_color_sc
self._cache_set = global_cmd._cache_set
self._cache_get = global_cmd._cache_get
self._cache_clear = global_cmd._cache_clear
self._cache_mark = global_cmd._cache_mark
self._cache_purge = global_cmd._cache_purge
# now we create the command langauge
from pymol import keywords
self.keyword = keywords.get_command_keywords()
self.kw_list = self.keyword.keys()
keywords.fix_list(self.kw_list)
self.kwhash = self.Shortcut(self.kw_list)
keywords.fix_dict(self.keyword)
self.controlling = pymol.controlling
self.completing = pymol.completing
self.controlling = pymol.controlling
self.editing = pymol.editing
self.exporting = pymol.exporting
self.moving = pymol.moving
self.creating = pymol.creating
self.viewing = pymol.viewing
self.setting = pymol.setting
self.commanding = pymol.commanding
self.help_only = keywords.get_help_only_keywords()
self.help_sc = self.Shortcut(self.keyword.keys()+self.help_only.keys())
self.selection_sc = lambda sc=self.Shortcut,gn=self.get_names:sc(gn('public')+['all'])
self.object_sc = lambda sc=self.Shortcut,gn=self.get_names:sc(gn('objects'))
self.map_sc = lambda sc=self.Shortcut,gnot=self.get_names_of_type:sc(gnot('object:map'))
self.contour_sc = lambda sc=self.Shortcut,gnot=self.get_names_of_type:sc(
gnot('object:mesh')+gnot('object:surface'))
self.fb_action_sc = pymol.feedingback.fb_action_sc
self.fb_module_sc = pymol.feedingback.fb_module_sc
self.fb_mask_sc = pymol.feedingback.fb_mask_sc
self.auto_arg = pymol.completing.get_auto_arg_list(self)
self.color_sc = None
# keyboard configuration
from pymol import keyboard
self.special = keyboard.get_special(self)
self.shft_special = keyboard.get_shft_special(self)
self.alt_special = keyboard.get_alt_special(self)
self.ctrl_special = keyboard.get_ctrl_special(self)
self.ctsh_special = keyboard.get_ctsh_special(self)
self.ctrl = keyboard.get_ctrl(self)
self.alt = keyboard.get_alt(self)
def __init__(self, _pymol, _COb):
self._weakref = weakref.ref(self)
self._weakrefproxy = weakref.proxy(self)
# store parent
self._pymol = weakref.proxy(_pymol)
# store C object for easy access
self._COb = _COb
# private data
self.color_sc = None
self.reaper = None
# deferred initiailization
global_cmd._deferred_init_pymol_internals(_pymol)
# PRIVATE FUNCTIONS (requiring '_self' as a keyword argument)
# locking.py
self.reaper = None
if 1:
# use own locks (for performance)
self.lock_api = _pymol.lock_api
self.lock_api_c = _pymol.lock_api_c
self.lock_api_data = _pymol.lock_api_data
self.lock_api_glut = _pymol.lock_api_glut
self.lock_api_status = _pymol.lock_api_status
else:
# use global locks (for debugging)
self.lock_api = global_cmd._pymol.lock_api
self.lock_api_c = global_cmd._pymol.lock_api_c
self.lock_api_data = global_cmd._pymol.lock_api_data
self.lock_api_glut = global_cmd._pymol.lock_api_glut
self.lock_api_status = global_cmd._pymol.lock_api_status
self.lock_api_allow_flush = 1
self.lockcm = global_cmd.LockCM(self)
# now we create the command langauge
from pymol import keywords
self.keyword = keywords.get_command_keywords()
self.kw_list = list(self.keyword)
keywords.fix_list(self.kw_list)
self.kwhash = self.Shortcut(self.kw_list)
keywords.fix_dict(self.keyword)
self.help_only = keywords.get_help_only_keywords()
self.help_sc = self.Shortcut(
itertools.chain(self.keyword, self.help_only))
self.selection_sc = lambda sc=self.Shortcut,gn=self.get_names:sc(gn('public')+['all'])
self.object_sc = lambda sc=self.Shortcut,gn=self.get_names:sc(gn('objects'))
self.map_sc = lambda sc=self.Shortcut,gnot=self.get_names_of_type:sc(gnot('object:map'))
self.contour_sc = lambda sc=self.Shortcut,gnot=self.get_names_of_type:sc(gnot('object:mesh')+gnot('object:surface'))
self.group_sc = lambda sc=self.Shortcut,gnot=self.get_names_of_type:sc(gnot('object:group'))
self.fb_action_sc = pymol.feedingback.fb_action_sc
self.fb_module_sc = pymol.feedingback.fb_module_sc
self.fb_mask_sc = pymol.feedingback.fb_mask_sc
self.auto_arg = pymol.completing.get_auto_arg_list(self)
self.color_sc = None
# keyboard configuration
from pymol import keyboard
self.key_mappings = keyboard.get_default_keys(self)
def __init__(self, _pymol, _COb):
global cmd
cmd = self
# store parent
self._pymol = _pymol
# store C object for easy access
self._COb = _COb
# private data
self.color_sc = None
self.reaper = None
# CONSTANTS (pymol/constants.py)
self.fb_debug = global_cmd.fb_debug # this cannot be right...
# deferred initiailization
global_cmd._deferred_init_pymol_internals(_pymol)
# PRIVATE FUNCTIONS (requiring '_self' as a keyword argument)
# locking.py
self.reaper = None
if 1:
# use own locks (for performance)
self.lock_api = _pymol.lock_api
self.lock_api_c = _pymol.lock_api_c
self.lock_api_data = _pymol.lock_api_data
self.lock_api_glut = _pymol.lock_api_glut
self.lock_api_status = _pymol.lock_api_status
else:
# use global locks (for debugging)
self.lock_api = global_cmd._pymol.lock_api
self.lock_api_c = global_cmd._pymol.lock_api_c
self.lock_api_data = global_cmd._pymol.lock_api_data
self.lock_api_glut = global_cmd._pymol.lock_api_glut
self.lock_api_status = global_cmd._pymol.lock_api_status
self.lock_api_allow_flush = 1
self.lockcm = global_cmd.LockCM(self)
# now we create the command langauge
from pymol import keywords
self.keyword = keywords.get_command_keywords()
self.kw_list = self.keyword.keys()
keywords.fix_list(self.kw_list)
self.kwhash = self.Shortcut(self.kw_list)
keywords.fix_dict(self.keyword)
self.help_only = keywords.get_help_only_keywords()
self.help_sc = self.Shortcut(self.keyword.keys() +
self.help_only.keys())
self.selection_sc = lambda sc=self.Shortcut, gn=self.get_names: sc(
gn('public') + ['all'])
self.object_sc = lambda sc=self.Shortcut, gn=self.get_names: sc(
gn('objects'))
self.map_sc = lambda sc=self.Shortcut, gnot=self.get_names_of_type: sc(
gnot('object:map'))
self.contour_sc = lambda sc=self.Shortcut, gnot=self.get_names_of_type: sc(
gnot('object:mesh') + gnot('object:surface'))
self.group_sc = lambda sc=self.Shortcut, gnot=self.get_names_of_type: sc(
gnot('object:group'))
self.fb_action_sc = pymol.feedingback.fb_action_sc
self.fb_module_sc = pymol.feedingback.fb_module_sc
self.fb_mask_sc = pymol.feedingback.fb_mask_sc
self.auto_arg = pymol.completing.get_auto_arg_list(self)
self.color_sc = None
# keyboard configuration
from pymol import keyboard
self.key_mappings = keyboard.get_default_keys(self)
def __init__(self, _pymol, _COb):
global cmd
cmd = self
# store parent
self._pymol = _pymol
# store C object for easy access
self._COb = _COb
# private data
self.color_sc = None
self.reaper = None
# CONSTANTS (pymol/constants.py)
self.fb_debug = global_cmd.fb_debug # this cannot be right...
# deferred initiailization
global_cmd._deferred_init_pymol_internals(_pymol)
# PRIVATE FUNCTIONS (requiring '_self' as a keyword argument)
# locking.py
self.reaper = None
if 1:
# use own locks (for performance)
self.lock_api = _pymol.lock_api
self.lock_api_c = _pymol.lock_api_c
self.lock_api_data = _pymol.lock_api_data
self.lock_api_glut = _pymol.lock_api_glut
self.lock_api_status = _pymol.lock_api_status
else:
# use global locks (for debugging)
self.lock_api = global_cmd._pymol.lock_api
self.lock_api_c = global_cmd._pymol.lock_api_c
self.lock_api_data = global_cmd._pymol.lock_api_data
self.lock_api_glut = global_cmd._pymol.lock_api_glut
self.lock_api_status = global_cmd._pymol.lock_api_status
self.lock_api_allow_flush = 1
# now we create the command langauge
from pymol import keywords
self.keyword = keywords.get_command_keywords()
self.kw_list = self.keyword.keys()
keywords.fix_list(self.kw_list)
self.kwhash = self.Shortcut(self.kw_list)
keywords.fix_dict(self.keyword)
self.help_only = keywords.get_help_only_keywords()
self.help_sc = self.Shortcut(self.keyword.keys()+self.help_only.keys())
self.selection_sc = lambda sc=self.Shortcut,gn=self.get_names:sc(gn('public')+['all'])
self.object_sc = lambda sc=self.Shortcut,gn=self.get_names:sc(gn('objects'))
self.map_sc = lambda sc=self.Shortcut,gnot=self.get_names_of_type:sc(gnot('object:map'))
self.contour_sc = lambda sc=self.Shortcut,gnot=self.get_names_of_type:sc(gnot('object:mesh')+gnot('object:surface'))
self.group_sc = lambda sc=self.Shortcut,gnot=self.get_names_of_type:sc(gnot('object:group'))
self.fb_action_sc = pymol.feedingback.fb_action_sc
self.fb_module_sc = pymol.feedingback.fb_module_sc
self.fb_mask_sc = pymol.feedingback.fb_mask_sc
self.auto_arg = pymol.completing.get_auto_arg_list(self)
self.color_sc = None
# keyboard configuration
from pymol import keyboard
self.special = keyboard.get_special(self)
self.shft_special = keyboard.get_shft_special(self)
self.alt_special = keyboard.get_alt_special(self)
self.ctrl_special = keyboard.get_ctrl_special(self)
self.ctsh_special = keyboard.get_ctsh_special(self)
self.ctrl = keyboard.get_ctrl(self)
self.alt = keyboard.get_alt(self)
def __init__(self, _pymol, _COb):
# store parent
self._pymol = _pymol
# store C object for easy access
self._COb = _COb
# private data
self.color_sc = None
self.reaper = None
# CONSTANTS (pymol/constants.py)
self.DEFAULT_ERROR = global_cmd.DEFAULT_ERROR
self.DEFAULT_SUCCESS = global_cmd.DEFAULT_SUCCESS
self.QuietException = global_cmd.QuietException
self.Shortcut = global_cmd.Shortcut
self._load2str = global_cmd._load2str
self.boolean_dict = global_cmd.boolean_dict
self.boolean_sc = global_cmd.boolean_sc
self.fb_action = global_cmd.fb_action
self.fb_mask = global_cmd.fb_mask
self.fb_module = global_cmd.fb_module
self.fb_debug = global_cmd.fb_debug # this cannot be right...
self.file_ext_re = global_cmd.file_ext_re
self.gz_ext_re = global_cmd.gz_ext_re
self.loadable = global_cmd.loadable
self.nt_hidden_path_re = global_cmd.nt_hidden_path_re
self.palette_dict = global_cmd.palette_dict
self.palette_sc = global_cmd.palette_sc
self.parsing = global_cmd.parsing
self.quote_alpha_list_re = global_cmd.quote_alpha_list_re
self.repres = global_cmd.repres
self.repres_sc = global_cmd.repres_sc
self.safe_alpha_list_eval = global_cmd.safe_alpha_list_eval
self.safe_list_eval = global_cmd.safe_list_eval
self.safe_oname_re = global_cmd.safe_oname_re
self.sanitize_alpha_list_re = global_cmd.sanitize_alpha_list_re
self.sanitize_list_re = global_cmd.sanitize_list_re
self.space_sc = global_cmd.space_sc
self.stereo_dict = global_cmd.stereo_dict
self.stereo_sc = global_cmd.stereo_sc
self.toggle_dict = global_cmd.toggle_dict
self.toggle_sc = global_cmd.toggle_sc
self.window_dict = global_cmd.window_dict
self.window_sc = global_cmd.window_sc
# GLOBAL FUNCTIONS
self.exp_path = global_cmd.exp_path
# deferred initiailization
global_cmd._deferred_init_pymol_internals(_pymol)
# PRIVATE FUNCTIONS (requiring '_self' as a keyword argument)
# locking.py
self.reaper = None
if 1:
# use own locks (for performance)
self.lock_api = _pymol.lock_api
self.lock_api_c = _pymol.lock_api_c
self.lock_api_data = _pymol.lock_api_data
self.lock_api_glut = _pymol.lock_api_glut
self.lock_api_status = _pymol.lock_api_status
else:
# use global locks (for debugging)
self.lock_api = global_cmd._pymol.lock_api
self.lock_api_c = global_cmd._pymol.lock_api_c
self.lock_api_data = global_cmd._pymol.lock_api_data
self.lock_api_glut = global_cmd._pymol.lock_api_glut
self.lock_api_status = global_cmd._pymol.lock_api_status
self.lock_api_allow_flush = 1
self.lock_c = global_cmd.lock_c
self.unlock_c = global_cmd.unlock_c
self.lock_data = global_cmd.lock_data
self.unlock_data = global_cmd.unlock_data
self.lock_status_attempt = global_cmd.lock_status_attempt
self.lock_status = global_cmd.lock_status
self.unlock_status = global_cmd.unlock_status
self.lock_glut = global_cmd.lock_glut
self.unlock_glut = global_cmd.unlock_glut
self.lock_without_glut = global_cmd.lock_without_glut
self.lock = global_cmd.lock
self.lock_attempt = global_cmd.lock_attempt
self.unlock = global_cmd.unlock
self.is_glut_thread = global_cmd.is_glut_thread
self.setup_global_locks = global_cmd.setup_global_locks
self.interrupt = global_cmd.interrupt
self.block_flush = global_cmd.block_flush
self.unblock_flush = global_cmd.unblock_flush
# pymol/checking.py
self._raising = global_cmd._raising
self.is_dict = global_cmd.is_dict
self.is_error = global_cmd.is_error
self.is_list = global_cmd.is_list
self.is_ok = global_cmd.is_ok
self.is_sequence = global_cmd.is_sequence
self.is_string = global_cmd.is_string
self.is_tuple = global_cmd.is_tuple
# from pymol/feedingback.py
self._feedback = global_cmd._feedback
# from pymol/internal.py
self._adjust_coord = global_cmd._adjust_coord
self._coordset_update_spawn = global_cmd._coordset_update_spawn
self._coordset_update_thread = global_cmd._coordset_update_thread
self._copy_image = global_cmd._copy_image
self._do = global_cmd._do
self._dump_floats = global_cmd._dump_floats
self._dump_ufloats = global_cmd._dump_ufloats
self._fake_drag = global_cmd._fake_drag
self._get_color_sc = global_cmd._get_color_sc
self._get_feedback = global_cmd._get_feedback
self._interpret_color = global_cmd._interpret_color
self._interpret_color = global_cmd._interpret_color
self._invalidate_color_sc = global_cmd._invalidate_color_sc
self._invalidate_color_sc = global_cmd._invalidate_color_sc
self._load = global_cmd._load
self._mpng = global_cmd._mpng
self._object_update_spawn = global_cmd._object_update_spawn
self._object_update_thread = global_cmd._object_update_thread
self._png = global_cmd._png
self._quit = global_cmd._quit
self._ray_anti_spawn = global_cmd._ray_anti_spawn
self._ray_hash_spawn = global_cmd._ray_hash_spawn
self._ray_spawn = global_cmd._ray_spawn
self._refresh = global_cmd._refresh
self._sgi_stereo = global_cmd._sgi_stereo
self._validate_color_sc = global_cmd._validate_color_sc
self._cache_set = global_cmd._cache_set
self._cache_get = global_cmd._cache_get
self._cache_clear = global_cmd._cache_clear
self._cache_mark = global_cmd._cache_mark
self._cache_purge = global_cmd._cache_purge
# now we create the command langauge
from pymol import keywords
self.keyword = keywords.get_command_keywords()
self.kw_list = self.keyword.keys()
keywords.fix_list(self.kw_list)
self.kwhash = self.Shortcut(self.kw_list)
keywords.fix_dict(self.keyword)
self.controlling = pymol.controlling
self.completing = pymol.completing
self.controlling = pymol.controlling
self.editing = pymol.editing
self.exporting = pymol.exporting
self.moving = pymol.moving
self.creating = pymol.creating
self.viewing = pymol.viewing
self.setting = pymol.setting
self.commanding = pymol.commanding
self.help_only = keywords.get_help_only_keywords()
self.help_sc = self.Shortcut(self.keyword.keys() +
self.help_only.keys())
self.selection_sc = lambda sc=self.Shortcut, gn=self.get_names: sc(
gn('public') + ['all'])
self.object_sc = lambda sc=self.Shortcut, gn=self.get_names: sc(
gn('objects'))
self.map_sc = lambda sc=self.Shortcut, gnot=self.get_names_of_type: sc(
gnot('object:map'))
self.contour_sc = lambda sc=self.Shortcut, gnot=self.get_names_of_type: sc(
gnot('object:mesh') + gnot('object:surface'))
self.fb_action_sc = pymol.feedingback.fb_action_sc
self.fb_module_sc = pymol.feedingback.fb_module_sc
self.fb_mask_sc = pymol.feedingback.fb_mask_sc
self.auto_arg = pymol.completing.get_auto_arg_list(self)
self.color_sc = None
# keyboard configuration
from pymol import keyboard
self.special = keyboard.get_special(self)
self.shft_special = keyboard.get_shft_special(self)
self.alt_special = keyboard.get_alt_special(self)
self.ctrl_special = keyboard.get_ctrl_special(self)
self.ctsh_special = keyboard.get_ctsh_special(self)
self.ctrl = keyboard.get_ctrl(self)
self.alt = keyboard.get_alt(self)