| | |
- builtins.object
-
- MoverList
- SilentStructStore
- WUM_MPI_TAGS
- WorkUnitBase
-
- DatabaseEntryWorkUnit
- WorkUnit_SilentStructStore
-
- WorkUnit_MoverWrapper
- WorkUnit_Wait
- WorkUnitList
- WorkUnitManager
-
- MPI_WorkUnitManager
-
- MPI_WorkUnitManager_Slave
- WorkUnitQueue
-
- WorkUnitQueue_Swapped
- find_SilentStructOPs
class DatabaseEntryWorkUnit(WorkUnitBase) |
| | |
- Method resolution order:
- DatabaseEntryWorkUnit
- WorkUnitBase
- builtins.object
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(self : handle, db_session : rosetta.utility.sql_database.session) -> NoneType
2. __init__(self : handle, row_map : rosetta.std.map_std_string_std_string) -> NoneType
3. __init__(handle, rosetta.protocols.wum.DatabaseEntryWorkUnit) -> NoneType
- __new__(*args, **kwargs) from builtins.type
- Create and return a new object. See help(type) for accurate signature.
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.wum.DatabaseEntryWorkUnit, : rosetta.protocols.wum.DatabaseEntryWorkUnit) -> rosetta.protocols.wum.DatabaseEntryWorkUnit
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.wum.DatabaseEntryWorkUnit) -> rosetta.protocols.wum.WorkUnitBase
- result_query_string(...) from builtins.PyCapsule
- result_query_string(rosetta.protocols.wum.DatabaseEntryWorkUnit) -> str
Accessor for database query string
Methods inherited from WorkUnitBase:
- add_blacklist(...) from builtins.PyCapsule
- add_blacklist(self : rosetta.protocols.wum.WorkUnitBase, mpi_rank : int) -> NoneType
Adds to the blacklist
- clear_blacklist(...) from builtins.PyCapsule
- clear_blacklist(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Erases the blacklist
- clear_serial_data(...) from builtins.PyCapsule
- clear_serial_data(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Remove all data, make sure that the memory is also cleared, hence the cals to reserve
- extra_data_1(...) from builtins.PyCapsule
- extra_data_1(rosetta.protocols.wum.WorkUnitBase) -> int
Accessor to the extra_data_1 and 3 field of the header
- extra_data_2(...) from builtins.PyCapsule
- extra_data_2(rosetta.protocols.wum.WorkUnitBase) -> int
- extra_data_3(...) from builtins.PyCapsule
- extra_data_3(rosetta.protocols.wum.WorkUnitBase) -> int
- get_options(...) from builtins.PyCapsule
- get_options(rosetta.protocols.wum.WorkUnitBase) -> str
Optain the options string from the header
- get_run_time(...) from builtins.PyCapsule
- get_run_time(rosetta.protocols.wum.WorkUnitBase) -> int
Returns the differrence between unix start and stop times
- get_wu_type(...) from builtins.PyCapsule
- get_wu_type(rosetta.protocols.wum.WorkUnitBase) -> str
Accessor to header structure, return the WorkUnit Type
- id(...) from builtins.PyCapsule
- id(rosetta.protocols.wum.WorkUnitBase) -> int
Accessor to the ID of the WorkUnit
- in_blacklist(...) from builtins.PyCapsule
- in_blacklist(self : rosetta.protocols.wum.WorkUnitBase, mpi_rank : int) -> bool
Finds in blacklist, true if is, false if it isn't
- last_received_from(...) from builtins.PyCapsule
- last_received_from(rosetta.protocols.wum.WorkUnitBase) -> int
- mem_footprint(...) from builtins.PyCapsule
- mem_footprint(rosetta.protocols.wum.WorkUnitBase) -> int
Return the memory usage of this WorkUnit
- run(...) from builtins.PyCapsule
- run(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Run the workunit - overloaded by children of this class
- set_extra_data_1(...) from builtins.PyCapsule
- set_extra_data_1(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_extra_data_2(...) from builtins.PyCapsule
- set_extra_data_2(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_extra_data_3(...) from builtins.PyCapsule
- set_extra_data_3(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_options(...) from builtins.PyCapsule
- set_options(self : rosetta.protocols.wum.WorkUnitBase, text : str) -> NoneType
Accesor to the "options" text field
- set_wu_type(...) from builtins.PyCapsule
- set_wu_type(self : rosetta.protocols.wum.WorkUnitBase, text : str) -> NoneType
Accessor to header structure, sets the WorkUnit Type
|
class SilentStructStore(builtins.object) |
| | |
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(handle) -> NoneType
2. __init__(handle, rosetta.protocols.wum.SilentStructStore) -> NoneType
- __new__(*args, **kwargs) from builtins.type
- Create and return a new object. See help(type) for accurate signature.
- add(...) from builtins.PyCapsule
- add(*args, **kwargs)
Overloaded function.
1. add(self : rosetta.protocols.wum.SilentStructStore, pose : rosetta.core.pose.Pose) -> NoneType
add a pose
2. add(self : rosetta.protocols.wum.SilentStructStore, new_struct : rosetta.core.io.silent.SilentStruct) -> NoneType
Add a core::io::silent::SilentStruct
3. add(self : rosetta.protocols.wum.SilentStructStore, new_struct : rosetta.core.io.silent.SilentStruct) -> NoneType
Add a core::io::silent::SilentStruct
4. add(self : rosetta.protocols.wum.SilentStructStore, sfd : rosetta.core.io.silent.SilentFileData) -> NoneType
Add structures froma silent file data object
5. add(self : rosetta.protocols.wum.SilentStructStore, mergestore : rosetta.protocols.wum.SilentStructStore) -> NoneType
Add the contents of another SilentStructStore
- all_add_energy(...) from builtins.PyCapsule
- all_add_energy(*args, **kwargs)
Overloaded function.
1. all_add_energy(self : rosetta.protocols.wum.SilentStructStore, scorename : str, value : float) -> NoneType
Manipulators:
2. all_add_energy(self : rosetta.protocols.wum.SilentStructStore, scorename : str, value : float, weight : float) -> NoneType
Manipulators:
- all_sort_silent_scores(...) from builtins.PyCapsule
- all_sort_silent_scores(rosetta.protocols.wum.SilentStructStore) -> NoneType
Manipulators:
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.wum.SilentStructStore, : rosetta.protocols.wum.SilentStructStore) -> rosetta.protocols.wum.SilentStructStore
- begin(...) from builtins.PyCapsule
- begin(*args, **kwargs)
Overloaded function.
1. begin(rosetta.protocols.wum.SilentStructStore) -> __gnu_cxx::__normal_iterator<std::shared_ptr<core::io::silent::SilentStruct>*, std::vector<std::shared_ptr<core::io::silent::SilentStruct>, std::allocator<std::shared_ptr<core::io::silent::SilentStruct> > > >
Returns an iterator to the start of the members of this container.
2. begin(rosetta.protocols.wum.SilentStructStore) -> __gnu_cxx::__normal_iterator<std::shared_ptr<core::io::silent::SilentStruct> const*, std::vector<std::shared_ptr<core::io::silent::SilentStruct>, std::allocator<std::shared_ptr<core::io::silent::SilentStruct> > > >
Returns an iterator to the start of the members of this container.
- clear(...) from builtins.PyCapsule
- clear(rosetta.protocols.wum.SilentStructStore) -> NoneType
Remove all structures
- end(...) from builtins.PyCapsule
- end(*args, **kwargs)
Overloaded function.
1. end(rosetta.protocols.wum.SilentStructStore) -> __gnu_cxx::__normal_iterator<std::shared_ptr<core::io::silent::SilentStruct>*, std::vector<std::shared_ptr<core::io::silent::SilentStruct>, std::allocator<std::shared_ptr<core::io::silent::SilentStruct> > > >
Returns an iterator to the end of the members of this container.
2. end(rosetta.protocols.wum.SilentStructStore) -> __gnu_cxx::__normal_iterator<std::shared_ptr<core::io::silent::SilentStruct> const*, std::vector<std::shared_ptr<core::io::silent::SilentStruct>, std::allocator<std::shared_ptr<core::io::silent::SilentStruct> > > >
Returns an iterator to the end of the members of this container.
- erase(...) from builtins.PyCapsule
- erase(self : rosetta.protocols.wum.SilentStructStore, it : __gnu_cxx::__normal_iterator<std::shared_ptr<core::io::silent::SilentStruct>*, std::vector<std::shared_ptr<core::io::silent::SilentStruct>, std::allocator<std::shared_ptr<core::io::silent::SilentStruct> > > >) -> NoneType
return numner of structures
- get_pose(...) from builtins.PyCapsule
- get_pose(self : rosetta.protocols.wum.SilentStructStore, index : int, pose : rosetta.core.pose.Pose) -> NoneType
Obtain a new pose from a given index. must provide a template pose though!
- get_struct(...) from builtins.PyCapsule
- get_struct(*args, **kwargs)
Overloaded function.
1. get_struct(self : rosetta.protocols.wum.SilentStructStore, index : int) -> rosetta.core.io.silent.SilentStruct
Get a structure with a certain index
2. get_struct(self : rosetta.protocols.wum.SilentStructStore, index : int) -> rosetta.core.io.silent.SilentStruct
Get a structure with a certain index
- get_struct_random(...) from builtins.PyCapsule
- get_struct_random(rosetta.protocols.wum.SilentStructStore) -> rosetta.core.io.silent.SilentStruct
Get a random structure
- limit(...) from builtins.PyCapsule
- limit(self : rosetta.protocols.wum.SilentStructStore, limit_size : int) -> NoneType
- mem_footprint(...) from builtins.PyCapsule
- mem_footprint(rosetta.protocols.wum.SilentStructStore) -> int
Return memory usage
- read_from_cmd_line(...) from builtins.PyCapsule
- read_from_cmd_line(rosetta.protocols.wum.SilentStructStore) -> NoneType
THis uses the pose stream to read in everything from -l, -s and -in:file:silent into this store.
- read_from_file(...) from builtins.PyCapsule
- read_from_file(self : rosetta.protocols.wum.SilentStructStore, filename : str) -> NoneType
read from string
- read_from_string(...) from builtins.PyCapsule
- read_from_string(self : rosetta.protocols.wum.SilentStructStore, input : str) -> NoneType
read from string
- serialize(...) from builtins.PyCapsule
- serialize(self : rosetta.protocols.wum.SilentStructStore, out : str) -> NoneType
Print silent file
- serialize_to_file(...) from builtins.PyCapsule
- serialize_to_file(self : rosetta.protocols.wum.SilentStructStore, file : str) -> NoneType
Print silent file
- size(...) from builtins.PyCapsule
- size(rosetta.protocols.wum.SilentStructStore) -> int
How many structures
- sort_by(...) from builtins.PyCapsule
- sort_by(*args, **kwargs)
Overloaded function.
1. sort_by(rosetta.protocols.wum.SilentStructStore) -> NoneType
2. sort_by(self : rosetta.protocols.wum.SilentStructStore, field : str) -> NoneType
- store(...) from builtins.PyCapsule
- store(rosetta.protocols.wum.SilentStructStore) -> rosetta.std.vector_std_shared_ptr_core_io_silent_SilentStruct_t
|
class WorkUnitBase(builtins.object) |
| |
The base class for all work units
|
| |
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(handle) -> NoneType
2. __init__(handle, rosetta.protocols.wum.WorkUnitBase) -> NoneType
- __new__(*args, **kwargs) from builtins.type
- Create and return a new object. See help(type) for accurate signature.
- add_blacklist(...) from builtins.PyCapsule
- add_blacklist(self : rosetta.protocols.wum.WorkUnitBase, mpi_rank : int) -> NoneType
Adds to the blacklist
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.wum.WorkUnitBase, : rosetta.protocols.wum.WorkUnitBase) -> rosetta.protocols.wum.WorkUnitBase
- clear_blacklist(...) from builtins.PyCapsule
- clear_blacklist(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Erases the blacklist
- clear_serial_data(...) from builtins.PyCapsule
- clear_serial_data(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Remove all data, make sure that the memory is also cleared, hence the cals to reserve
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.wum.WorkUnitBase) -> rosetta.protocols.wum.WorkUnitBase
- extra_data_1(...) from builtins.PyCapsule
- extra_data_1(rosetta.protocols.wum.WorkUnitBase) -> int
Accessor to the extra_data_1 and 3 field of the header
- extra_data_2(...) from builtins.PyCapsule
- extra_data_2(rosetta.protocols.wum.WorkUnitBase) -> int
- extra_data_3(...) from builtins.PyCapsule
- extra_data_3(rosetta.protocols.wum.WorkUnitBase) -> int
- get_options(...) from builtins.PyCapsule
- get_options(rosetta.protocols.wum.WorkUnitBase) -> str
Optain the options string from the header
- get_run_time(...) from builtins.PyCapsule
- get_run_time(rosetta.protocols.wum.WorkUnitBase) -> int
Returns the differrence between unix start and stop times
- get_wu_type(...) from builtins.PyCapsule
- get_wu_type(rosetta.protocols.wum.WorkUnitBase) -> str
Accessor to header structure, return the WorkUnit Type
- id(...) from builtins.PyCapsule
- id(rosetta.protocols.wum.WorkUnitBase) -> int
Accessor to the ID of the WorkUnit
- in_blacklist(...) from builtins.PyCapsule
- in_blacklist(self : rosetta.protocols.wum.WorkUnitBase, mpi_rank : int) -> bool
Finds in blacklist, true if is, false if it isn't
- last_received_from(...) from builtins.PyCapsule
- last_received_from(rosetta.protocols.wum.WorkUnitBase) -> int
- mem_footprint(...) from builtins.PyCapsule
- mem_footprint(rosetta.protocols.wum.WorkUnitBase) -> int
Return the memory usage of this WorkUnit
- run(...) from builtins.PyCapsule
- run(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Run the workunit - overloaded by children of this class
- set_extra_data_1(...) from builtins.PyCapsule
- set_extra_data_1(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_extra_data_2(...) from builtins.PyCapsule
- set_extra_data_2(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_extra_data_3(...) from builtins.PyCapsule
- set_extra_data_3(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_options(...) from builtins.PyCapsule
- set_options(self : rosetta.protocols.wum.WorkUnitBase, text : str) -> NoneType
Accesor to the "options" text field
- set_wu_type(...) from builtins.PyCapsule
- set_wu_type(self : rosetta.protocols.wum.WorkUnitBase, text : str) -> NoneType
Accessor to header structure, sets the WorkUnit Type
|
class WorkUnitList(builtins.object) |
| |
WOrkUnitList is a store for WorkUnitCOPs. THe purpose of this class is to store all the possible WorkUnits
that a protocol might need. When needed these are cloned and then used. THis class acts like a library of WorkUnit blueprints.
|
| |
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(rosetta.protocols.wum.WorkUnitList) -> NoneType
2. __init__(self : rosetta.protocols.wum.WorkUnitList, : rosetta.protocols.wum.WorkUnitList) -> NoneType
- __new__(*args, **kwargs) from builtins.type
- Create and return a new object. See help(type) for accurate signature.
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.wum.WorkUnitList, : rosetta.protocols.wum.WorkUnitList) -> rosetta.protocols.wum.WorkUnitList
- get_work_unit(...) from builtins.PyCapsule
- get_work_unit(*args, **kwargs)
Overloaded function.
1. get_work_unit(self : rosetta.protocols.wum.WorkUnitList, name : str) -> rosetta.protocols.wum.WorkUnitBase
Return a COP to a workunit with a given name. If multiple WUs were registered with the same name, the first is returned.
2. get_work_unit(self : rosetta.protocols.wum.WorkUnitList, wu : rosetta.protocols.wum.WorkUnitBase) -> rosetta.protocols.wum.WorkUnitBase
Return an OP to a workunit with the same name as the one given as a parameter.
- get_work_unit_clone(...) from builtins.PyCapsule
- get_work_unit_clone(*args, **kwargs)
Overloaded function.
1. get_work_unit_clone(self : rosetta.protocols.wum.WorkUnitList, name : str) -> rosetta.protocols.wum.WorkUnitBase
Return an OP to a workunit with a given name but clone it.
2. get_work_unit_clone(self : rosetta.protocols.wum.WorkUnitList, wu : rosetta.protocols.wum.WorkUnitBase) -> rosetta.protocols.wum.WorkUnitBase
Return an OP to a workunit with the same name as the one given as a parameter, but as a clone
- merge(...) from builtins.PyCapsule
- merge(self : rosetta.protocols.wum.WorkUnitList, source : rosetta.protocols.wum.WorkUnitList) -> NoneType
- register_work_unit(...) from builtins.PyCapsule
- register_work_unit(self : rosetta.protocols.wum.WorkUnitList, name : str, the_work_unit : rosetta.protocols.wum.WorkUnitBase) -> NoneType
Add a WorkUnit to the list, each workunit must be named with a string that is used later to retrieve it !
|
class WorkUnitQueue(builtins.object) |
| | |
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(handle) -> NoneType
2. __init__(handle, rosetta.protocols.wum.WorkUnitQueue) -> NoneType
- __new__(*args, **kwargs) from builtins.type
- Create and return a new object. See help(type) for accurate signature.
- add(...) from builtins.PyCapsule
- add(self : rosetta.protocols.wum.WorkUnitQueue, new_wu : rosetta.protocols.wum.WorkUnitBase) -> NoneType
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.wum.WorkUnitQueue, : rosetta.protocols.wum.WorkUnitQueue) -> rosetta.protocols.wum.WorkUnitQueue
- begin(...) from builtins.PyCapsule
- begin(*args, **kwargs)
Overloaded function.
1. begin(rosetta.protocols.wum.WorkUnitQueue) -> std::_List_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >
2. begin(rosetta.protocols.wum.WorkUnitQueue) -> std::_List_const_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >
- clear(...) from builtins.PyCapsule
- clear(rosetta.protocols.wum.WorkUnitQueue) -> NoneType
- end(...) from builtins.PyCapsule
- end(*args, **kwargs)
Overloaded function.
1. end(rosetta.protocols.wum.WorkUnitQueue) -> std::_List_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >
2. end(rosetta.protocols.wum.WorkUnitQueue) -> std::_List_const_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >
- erase(...) from builtins.PyCapsule
- erase(self : rosetta.protocols.wum.WorkUnitQueue, i : std::_List_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >) -> std::_List_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >
- is_under_memory_limit(...) from builtins.PyCapsule
- is_under_memory_limit(rosetta.protocols.wum.WorkUnitQueue) -> bool
- mem_foot_print(...) from builtins.PyCapsule
- mem_foot_print(rosetta.protocols.wum.WorkUnitQueue) -> int
return total memory foot print in bytes
- mem_stats(...) from builtins.PyCapsule
- mem_stats(self : rosetta.protocols.wum.WorkUnitQueue, n_structs : int, structs_memory : int, WU_memory : int) -> NoneType
report number of total structures, and memory foot prints
- next(...) from builtins.PyCapsule
- next(rosetta.protocols.wum.WorkUnitQueue) -> rosetta.protocols.wum.WorkUnitBase
- pop_next(...) from builtins.PyCapsule
- pop_next(rosetta.protocols.wum.WorkUnitQueue) -> rosetta.protocols.wum.WorkUnitBase
- push_back(...) from builtins.PyCapsule
- push_back(self : rosetta.protocols.wum.WorkUnitQueue, new_wu : rosetta.protocols.wum.WorkUnitBase) -> NoneType
- push_front(...) from builtins.PyCapsule
- push_front(self : rosetta.protocols.wum.WorkUnitQueue, new_wu : rosetta.protocols.wum.WorkUnitBase) -> NoneType
- set_memory_limit(...) from builtins.PyCapsule
- set_memory_limit(self : rosetta.protocols.wum.WorkUnitQueue, memory_limit : int) -> NoneType
- size(...) from builtins.PyCapsule
- size(rosetta.protocols.wum.WorkUnitQueue) -> int
|
class WorkUnitQueue_Swapped(WorkUnitQueue) |
| | |
- Method resolution order:
- WorkUnitQueue_Swapped
- WorkUnitQueue
- builtins.object
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(self : handle, wum : protocols::wum::WorkUnitManager, swap_file : str, memory_limit : int) -> NoneType
2. __init__(handle, rosetta.protocols.wum.WorkUnitQueue_Swapped) -> NoneType
- __new__(*args, **kwargs) from builtins.type
- Create and return a new object. See help(type) for accurate signature.
- add(...) from builtins.PyCapsule
- add(self : rosetta.protocols.wum.WorkUnitQueue_Swapped, new_wu : rosetta.protocols.wum.WorkUnitBase) -> NoneType
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.wum.WorkUnitQueue_Swapped, : rosetta.protocols.wum.WorkUnitQueue_Swapped) -> rosetta.protocols.wum.WorkUnitQueue_Swapped
- swap_file(...) from builtins.PyCapsule
- swap_file(rosetta.protocols.wum.WorkUnitQueue_Swapped) -> str
Methods inherited from WorkUnitQueue:
- begin(...) from builtins.PyCapsule
- begin(*args, **kwargs)
Overloaded function.
1. begin(rosetta.protocols.wum.WorkUnitQueue) -> std::_List_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >
2. begin(rosetta.protocols.wum.WorkUnitQueue) -> std::_List_const_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >
- clear(...) from builtins.PyCapsule
- clear(rosetta.protocols.wum.WorkUnitQueue) -> NoneType
- end(...) from builtins.PyCapsule
- end(*args, **kwargs)
Overloaded function.
1. end(rosetta.protocols.wum.WorkUnitQueue) -> std::_List_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >
2. end(rosetta.protocols.wum.WorkUnitQueue) -> std::_List_const_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >
- erase(...) from builtins.PyCapsule
- erase(self : rosetta.protocols.wum.WorkUnitQueue, i : std::_List_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >) -> std::_List_iterator<std::shared_ptr<protocols::wum::WorkUnitBase> >
- is_under_memory_limit(...) from builtins.PyCapsule
- is_under_memory_limit(rosetta.protocols.wum.WorkUnitQueue) -> bool
- mem_foot_print(...) from builtins.PyCapsule
- mem_foot_print(rosetta.protocols.wum.WorkUnitQueue) -> int
return total memory foot print in bytes
- mem_stats(...) from builtins.PyCapsule
- mem_stats(self : rosetta.protocols.wum.WorkUnitQueue, n_structs : int, structs_memory : int, WU_memory : int) -> NoneType
report number of total structures, and memory foot prints
- next(...) from builtins.PyCapsule
- next(rosetta.protocols.wum.WorkUnitQueue) -> rosetta.protocols.wum.WorkUnitBase
- pop_next(...) from builtins.PyCapsule
- pop_next(rosetta.protocols.wum.WorkUnitQueue) -> rosetta.protocols.wum.WorkUnitBase
- push_back(...) from builtins.PyCapsule
- push_back(self : rosetta.protocols.wum.WorkUnitQueue, new_wu : rosetta.protocols.wum.WorkUnitBase) -> NoneType
- push_front(...) from builtins.PyCapsule
- push_front(self : rosetta.protocols.wum.WorkUnitQueue, new_wu : rosetta.protocols.wum.WorkUnitBase) -> NoneType
- set_memory_limit(...) from builtins.PyCapsule
- set_memory_limit(self : rosetta.protocols.wum.WorkUnitQueue, memory_limit : int) -> NoneType
- size(...) from builtins.PyCapsule
- size(rosetta.protocols.wum.WorkUnitQueue) -> int
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class WorkUnit_MoverWrapper(WorkUnit_SilentStructStore) |
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This WorkUnit type can encapsulate any MoverOP. When registering this WOrkunit
provide it with a MoverOP and then, when executed on the slaves, this workunit will run the mover
On every single input structure and return the results.
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- Method resolution order:
- WorkUnit_MoverWrapper
- WorkUnit_SilentStructStore
- WorkUnitBase
- builtins.object
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(self : handle, the_mover : rosetta.protocols.moves.Mover) -> NoneType
2. __init__(handle, rosetta.protocols.wum.WorkUnit_MoverWrapper) -> NoneType
- __new__(*args, **kwargs) from builtins.type
- Create and return a new object. See help(type) for accurate signature.
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.wum.WorkUnit_MoverWrapper, : rosetta.protocols.wum.WorkUnit_MoverWrapper) -> rosetta.protocols.wum.WorkUnit_MoverWrapper
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.wum.WorkUnit_MoverWrapper) -> rosetta.protocols.wum.WorkUnitBase
- run(...) from builtins.PyCapsule
- run(rosetta.protocols.wum.WorkUnit_MoverWrapper) -> NoneType
Methods inherited from WorkUnit_SilentStructStore:
- decoys(...) from builtins.PyCapsule
- decoys(*args, **kwargs)
Overloaded function.
1. decoys(rosetta.protocols.wum.WorkUnit_SilentStructStore) -> rosetta.protocols.wum.SilentStructStore
Accessor for decoy store
2. decoys(rosetta.protocols.wum.WorkUnit_SilentStructStore) -> rosetta.protocols.wum.SilentStructStore
Accessor for decoy store
- deserialize(...) from builtins.PyCapsule
- deserialize(rosetta.protocols.wum.WorkUnit_SilentStructStore) -> NoneType
Make ready for working
- serialize(...) from builtins.PyCapsule
- serialize(rosetta.protocols.wum.WorkUnit_SilentStructStore) -> NoneType
write decoys into serial data store overwritinge whatever was there before. It basically syncs the silent struct store with the derial data
Methods inherited from WorkUnitBase:
- add_blacklist(...) from builtins.PyCapsule
- add_blacklist(self : rosetta.protocols.wum.WorkUnitBase, mpi_rank : int) -> NoneType
Adds to the blacklist
- clear_blacklist(...) from builtins.PyCapsule
- clear_blacklist(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Erases the blacklist
- clear_serial_data(...) from builtins.PyCapsule
- clear_serial_data(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Remove all data, make sure that the memory is also cleared, hence the cals to reserve
- extra_data_1(...) from builtins.PyCapsule
- extra_data_1(rosetta.protocols.wum.WorkUnitBase) -> int
Accessor to the extra_data_1 and 3 field of the header
- extra_data_2(...) from builtins.PyCapsule
- extra_data_2(rosetta.protocols.wum.WorkUnitBase) -> int
- extra_data_3(...) from builtins.PyCapsule
- extra_data_3(rosetta.protocols.wum.WorkUnitBase) -> int
- get_options(...) from builtins.PyCapsule
- get_options(rosetta.protocols.wum.WorkUnitBase) -> str
Optain the options string from the header
- get_run_time(...) from builtins.PyCapsule
- get_run_time(rosetta.protocols.wum.WorkUnitBase) -> int
Returns the differrence between unix start and stop times
- get_wu_type(...) from builtins.PyCapsule
- get_wu_type(rosetta.protocols.wum.WorkUnitBase) -> str
Accessor to header structure, return the WorkUnit Type
- id(...) from builtins.PyCapsule
- id(rosetta.protocols.wum.WorkUnitBase) -> int
Accessor to the ID of the WorkUnit
- in_blacklist(...) from builtins.PyCapsule
- in_blacklist(self : rosetta.protocols.wum.WorkUnitBase, mpi_rank : int) -> bool
Finds in blacklist, true if is, false if it isn't
- last_received_from(...) from builtins.PyCapsule
- last_received_from(rosetta.protocols.wum.WorkUnitBase) -> int
- mem_footprint(...) from builtins.PyCapsule
- mem_footprint(rosetta.protocols.wum.WorkUnitBase) -> int
Return the memory usage of this WorkUnit
- set_extra_data_1(...) from builtins.PyCapsule
- set_extra_data_1(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_extra_data_2(...) from builtins.PyCapsule
- set_extra_data_2(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_extra_data_3(...) from builtins.PyCapsule
- set_extra_data_3(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_options(...) from builtins.PyCapsule
- set_options(self : rosetta.protocols.wum.WorkUnitBase, text : str) -> NoneType
Accesor to the "options" text field
- set_wu_type(...) from builtins.PyCapsule
- set_wu_type(self : rosetta.protocols.wum.WorkUnitBase, text : str) -> NoneType
Accessor to header structure, sets the WorkUnit Type
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class WorkUnit_SilentStructStore(WorkUnitBase) |
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This WorkUnit type has structures in it. Most Workunits should derive from this one rather
THe the Base class.
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- Method resolution order:
- WorkUnit_SilentStructStore
- WorkUnitBase
- builtins.object
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(handle) -> NoneType
2. __init__(handle, rosetta.protocols.wum.WorkUnit_SilentStructStore) -> NoneType
- __new__(*args, **kwargs) from builtins.type
- Create and return a new object. See help(type) for accurate signature.
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.wum.WorkUnit_SilentStructStore, : rosetta.protocols.wum.WorkUnit_SilentStructStore) -> rosetta.protocols.wum.WorkUnit_SilentStructStore
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.wum.WorkUnit_SilentStructStore) -> rosetta.protocols.wum.WorkUnitBase
- decoys(...) from builtins.PyCapsule
- decoys(*args, **kwargs)
Overloaded function.
1. decoys(rosetta.protocols.wum.WorkUnit_SilentStructStore) -> rosetta.protocols.wum.SilentStructStore
Accessor for decoy store
2. decoys(rosetta.protocols.wum.WorkUnit_SilentStructStore) -> rosetta.protocols.wum.SilentStructStore
Accessor for decoy store
- deserialize(...) from builtins.PyCapsule
- deserialize(rosetta.protocols.wum.WorkUnit_SilentStructStore) -> NoneType
Make ready for working
- run(...) from builtins.PyCapsule
- run(rosetta.protocols.wum.WorkUnit_SilentStructStore) -> NoneType
This Work unit doesnt do *anything* - its just keeps the structures
- serialize(...) from builtins.PyCapsule
- serialize(rosetta.protocols.wum.WorkUnit_SilentStructStore) -> NoneType
write decoys into serial data store overwritinge whatever was there before. It basically syncs the silent struct store with the derial data
Methods inherited from WorkUnitBase:
- add_blacklist(...) from builtins.PyCapsule
- add_blacklist(self : rosetta.protocols.wum.WorkUnitBase, mpi_rank : int) -> NoneType
Adds to the blacklist
- clear_blacklist(...) from builtins.PyCapsule
- clear_blacklist(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Erases the blacklist
- clear_serial_data(...) from builtins.PyCapsule
- clear_serial_data(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Remove all data, make sure that the memory is also cleared, hence the cals to reserve
- extra_data_1(...) from builtins.PyCapsule
- extra_data_1(rosetta.protocols.wum.WorkUnitBase) -> int
Accessor to the extra_data_1 and 3 field of the header
- extra_data_2(...) from builtins.PyCapsule
- extra_data_2(rosetta.protocols.wum.WorkUnitBase) -> int
- extra_data_3(...) from builtins.PyCapsule
- extra_data_3(rosetta.protocols.wum.WorkUnitBase) -> int
- get_options(...) from builtins.PyCapsule
- get_options(rosetta.protocols.wum.WorkUnitBase) -> str
Optain the options string from the header
- get_run_time(...) from builtins.PyCapsule
- get_run_time(rosetta.protocols.wum.WorkUnitBase) -> int
Returns the differrence between unix start and stop times
- get_wu_type(...) from builtins.PyCapsule
- get_wu_type(rosetta.protocols.wum.WorkUnitBase) -> str
Accessor to header structure, return the WorkUnit Type
- id(...) from builtins.PyCapsule
- id(rosetta.protocols.wum.WorkUnitBase) -> int
Accessor to the ID of the WorkUnit
- in_blacklist(...) from builtins.PyCapsule
- in_blacklist(self : rosetta.protocols.wum.WorkUnitBase, mpi_rank : int) -> bool
Finds in blacklist, true if is, false if it isn't
- last_received_from(...) from builtins.PyCapsule
- last_received_from(rosetta.protocols.wum.WorkUnitBase) -> int
- mem_footprint(...) from builtins.PyCapsule
- mem_footprint(rosetta.protocols.wum.WorkUnitBase) -> int
Return the memory usage of this WorkUnit
- set_extra_data_1(...) from builtins.PyCapsule
- set_extra_data_1(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_extra_data_2(...) from builtins.PyCapsule
- set_extra_data_2(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_extra_data_3(...) from builtins.PyCapsule
- set_extra_data_3(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_options(...) from builtins.PyCapsule
- set_options(self : rosetta.protocols.wum.WorkUnitBase, text : str) -> NoneType
Accesor to the "options" text field
- set_wu_type(...) from builtins.PyCapsule
- set_wu_type(self : rosetta.protocols.wum.WorkUnitBase, text : str) -> NoneType
Accessor to header structure, sets the WorkUnit Type
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class WorkUnit_Wait(WorkUnitBase) |
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- Method resolution order:
- WorkUnit_Wait
- WorkUnitBase
- builtins.object
Methods defined here:
- __init__(...) from builtins.PyCapsule
- __init__(*args, **kwargs)
Overloaded function.
1. __init__(handle) -> NoneType
doc
2. __init__(self : handle, wait_time : int) -> NoneType
3. __init__(handle, rosetta.protocols.wum.WorkUnit_Wait) -> NoneType
- __new__(*args, **kwargs) from builtins.type
- Create and return a new object. See help(type) for accurate signature.
- assign(...) from builtins.PyCapsule
- assign(self : rosetta.protocols.wum.WorkUnit_Wait, : rosetta.protocols.wum.WorkUnit_Wait) -> rosetta.protocols.wum.WorkUnit_Wait
- clone(...) from builtins.PyCapsule
- clone(rosetta.protocols.wum.WorkUnit_Wait) -> rosetta.protocols.wum.WorkUnitBase
- run(...) from builtins.PyCapsule
- run(rosetta.protocols.wum.WorkUnit_Wait) -> NoneType
Methods inherited from WorkUnitBase:
- add_blacklist(...) from builtins.PyCapsule
- add_blacklist(self : rosetta.protocols.wum.WorkUnitBase, mpi_rank : int) -> NoneType
Adds to the blacklist
- clear_blacklist(...) from builtins.PyCapsule
- clear_blacklist(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Erases the blacklist
- clear_serial_data(...) from builtins.PyCapsule
- clear_serial_data(rosetta.protocols.wum.WorkUnitBase) -> NoneType
Remove all data, make sure that the memory is also cleared, hence the cals to reserve
- extra_data_1(...) from builtins.PyCapsule
- extra_data_1(rosetta.protocols.wum.WorkUnitBase) -> int
Accessor to the extra_data_1 and 3 field of the header
- extra_data_2(...) from builtins.PyCapsule
- extra_data_2(rosetta.protocols.wum.WorkUnitBase) -> int
- extra_data_3(...) from builtins.PyCapsule
- extra_data_3(rosetta.protocols.wum.WorkUnitBase) -> int
- get_options(...) from builtins.PyCapsule
- get_options(rosetta.protocols.wum.WorkUnitBase) -> str
Optain the options string from the header
- get_run_time(...) from builtins.PyCapsule
- get_run_time(rosetta.protocols.wum.WorkUnitBase) -> int
Returns the differrence between unix start and stop times
- get_wu_type(...) from builtins.PyCapsule
- get_wu_type(rosetta.protocols.wum.WorkUnitBase) -> str
Accessor to header structure, return the WorkUnit Type
- id(...) from builtins.PyCapsule
- id(rosetta.protocols.wum.WorkUnitBase) -> int
Accessor to the ID of the WorkUnit
- in_blacklist(...) from builtins.PyCapsule
- in_blacklist(self : rosetta.protocols.wum.WorkUnitBase, mpi_rank : int) -> bool
Finds in blacklist, true if is, false if it isn't
- last_received_from(...) from builtins.PyCapsule
- last_received_from(rosetta.protocols.wum.WorkUnitBase) -> int
- mem_footprint(...) from builtins.PyCapsule
- mem_footprint(rosetta.protocols.wum.WorkUnitBase) -> int
Return the memory usage of this WorkUnit
- set_extra_data_1(...) from builtins.PyCapsule
- set_extra_data_1(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_extra_data_2(...) from builtins.PyCapsule
- set_extra_data_2(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_extra_data_3(...) from builtins.PyCapsule
- set_extra_data_3(self : rosetta.protocols.wum.WorkUnitBase, value : int) -> NoneType
- set_options(...) from builtins.PyCapsule
- set_options(self : rosetta.protocols.wum.WorkUnitBase, text : str) -> NoneType
Accesor to the "options" text field
- set_wu_type(...) from builtins.PyCapsule
- set_wu_type(self : rosetta.protocols.wum.WorkUnitBase, text : str) -> NoneType
Accessor to header structure, sets the WorkUnit Type
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