| | |
- build_pose(...) method of builtins.PyCapsule instance
- build_pose(*args, **kwargs)
Overloaded function.
1. build_pose(fd : rosetta.core.io.StructFileRep, pose : rosetta.core.pose.Pose, residue_set : rosetta.core.chemical.ResidueTypeSet) -> NoneType
Create pose object, using given StructFileRep object.
If PDB cleanin specified - it will be applied first.
Constructs a ImportPoseOptions object from the command line
2. build_pose(fd : rosetta.core.io.StructFileRep, pose : rosetta.core.pose.Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, options : core::import_pose::ImportPoseOptions) -> NoneType
Create pose object, using given StructFileRep object.
If PDB cleanin specified - it will be applied first
- build_pose_as_is(...) method of builtins.PyCapsule instance
- build_pose_as_is(fd : rosetta.core.io.StructFileRep, pose : rosetta.core.pose.Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, options : core::import_pose::ImportPoseOptions) -> NoneType
Create pose object, using given StructFileRep object.
No PDB cleanin will be appliend.
- build_pose_as_is2(...) method of builtins.PyCapsule instance
- build_pose_as_is2(fd : rosetta.core.io.StructFileRep, pose : rosetta.core.pose.Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, missing : rosetta.core.id.AtomID_Map_bool_t, options : core::import_pose::ImportPoseOptions) -> NoneType
- centroid_pose_from_pdb(...) method of builtins.PyCapsule instance
- centroid_pose_from_pdb(*args, **kwargs)
Overloaded function.
1. centroid_pose_from_pdb(pose : rosetta.core.pose.Pose, filename : str) -> NoneType
Reads in data from input PDB <filename> and stores it in the Pose
<pose> using the CENTROID ResidueTypeSet (centroid)
2. centroid_pose_from_pdb(pose : rosetta.core.pose.Pose, filename : str, read_fold_tree : bool) -> NoneType
Reads in data from input PDB <filename> and stores it in the Pose
<pose> using the CENTROID ResidueTypeSet (centroid)
- determine_file_type(...) method of builtins.PyCapsule instance
- determine_file_type(contents_of_file : str) -> rosetta.core.import_pose.FileType
Determine what file type is passed to function
there should only be one function that calls this, pose_from_file
and only calls it when the filetype is unknown
- poseOPs_from_files(...) method of builtins.PyCapsule instance
- poseOPs_from_files(*args, **kwargs)
Overloaded function.
1. poseOPs_from_files(filenames : rosetta.utility.vector1_std_string) -> rosetta.utility.vector1_std_shared_ptr_core_pose_Pose_t
2. poseOPs_from_files(filenames : rosetta.utility.vector1_std_string, read_fold_tree : bool) -> rosetta.utility.vector1_std_shared_ptr_core_pose_Pose_t
3. poseOPs_from_files(filenames : rosetta.utility.vector1_std_string, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> rosetta.utility.vector1_std_shared_ptr_core_pose_Pose_t
4. poseOPs_from_files(filenames : rosetta.utility.vector1_std_string, options : core::import_pose::ImportPoseOptions) -> rosetta.utility.vector1_std_shared_ptr_core_pose_Pose_t
5. poseOPs_from_files(filenames : rosetta.utility.vector1_std_string, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool) -> rosetta.utility.vector1_std_shared_ptr_core_pose_Pose_t
6. poseOPs_from_files(filenames : rosetta.utility.vector1_std_string, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> rosetta.utility.vector1_std_shared_ptr_core_pose_Pose_t
7. poseOPs_from_files(residue_set : rosetta.core.chemical.ResidueTypeSet, filenames : rosetta.utility.vector1_std_string, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool) -> rosetta.utility.vector1_std_shared_ptr_core_pose_Pose_t
8. poseOPs_from_files(residue_set : rosetta.core.chemical.ResidueTypeSet, filenames : rosetta.utility.vector1_std_string, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> rosetta.utility.vector1_std_shared_ptr_core_pose_Pose_t
- pose_from_file(...) method of builtins.PyCapsule instance
- pose_from_file(*args, **kwargs)
Overloaded function.
1. pose_from_file(filename : str) -> rosetta.core.pose.Pose
Returns a PoseOP object from the Pose created from input
PDB <filename>
: in PyRosetta, this will return a Pose object
example(s):
pose = pose_from_file("YFP.pdb")
See also:
Pose
PDBInfo
make_pose_from_sequence
pose_from_rcsb
pose_from_sequence
2. pose_from_file(filename : str, read_fold_tree : bool) -> rosetta.core.pose.Pose
Returns a PoseOP object from the Pose created from input
PDB <filename>
: in PyRosetta, this will return a Pose object
example(s):
pose = pose_from_file("YFP.pdb")
See also:
Pose
PDBInfo
make_pose_from_sequence
pose_from_rcsb
pose_from_sequence
3. pose_from_file(filename : str, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> rosetta.core.pose.Pose
Returns a PoseOP object from the Pose created from input
PDB <filename>
: in PyRosetta, this will return a Pose object
example(s):
pose = pose_from_file("YFP.pdb")
See also:
Pose
PDBInfo
make_pose_from_sequence
pose_from_rcsb
pose_from_sequence
4. pose_from_file(filename : str, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> rosetta.core.pose.Pose
Returns a PoseOP object from the Pose created from input
PDB <filename>, taking a set of custom ImportPoseOptions parameters.
: in PyRosetta, this will return a Pose object
example(s):
pose = pose_from_file("YFP.pdb")
See also:
Pose
PDBInfo
make_pose_from_sequence
pose_from_rcsb
pose_from_sequence
5. pose_from_file(residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str) -> rosetta.core.pose.Pose
Returns a PoseOP object from the Pose created by reading the input
PDB <filename>, this constructor allows for a non-default ResidueTypeSet
<residue_set>
6. pose_from_file(residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, read_fold_tree : bool) -> rosetta.core.pose.Pose
Returns a PoseOP object from the Pose created by reading the input
PDB <filename>, this constructor allows for a non-default ResidueTypeSet
<residue_set>
7. pose_from_file(residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> rosetta.core.pose.Pose
Returns a PoseOP object from the Pose created by reading the input
PDB <filename>, this constructor allows for a non-default ResidueTypeSet
<residue_set>
8. pose_from_file(pose : rosetta.core.pose.Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, options : core::import_pose::ImportPoseOptions) -> NoneType
9. pose_from_file(pose : rosetta.core.pose.Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool) -> NoneType
10. pose_from_file(pose : rosetta.core.pose.Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool, file_type : rosetta.core.import_pose.FileType) -> NoneType
11. pose_from_file(pose : rosetta.core.pose.Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str) -> NoneType
Reads in data from input PDB <filename> and stores it in the Pose
<pose>, this constructor allows for a non-default ResidueTypeSet
<residue_set>
12. pose_from_file(pose : rosetta.core.pose.Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, read_fold_tree : bool) -> NoneType
Reads in data from input PDB <filename> and stores it in the Pose
<pose>, this constructor allows for a non-default ResidueTypeSet
<residue_set>
13. pose_from_file(pose : rosetta.core.pose.Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> NoneType
Reads in data from input PDB <filename> and stores it in the Pose
<pose>, this constructor allows for a non-default ResidueTypeSet
<residue_set>
14. pose_from_file(pose : rosetta.core.pose.Pose, filename : str) -> NoneType
Reads in data from input PDB <filename> and stores it in the Pose
<pose>, uses the FA_STANDARD ResidueTypeSet (fullatom) by default
: will use centroid if in::file::centroid_input is true
example(s):
pose_from_file(pose,"YFP.pdb")
See also:
Pose
PDBInfo
15. pose_from_file(pose : rosetta.core.pose.Pose, filename : str, read_fold_tree : bool) -> NoneType
Reads in data from input PDB <filename> and stores it in the Pose
<pose>, uses the FA_STANDARD ResidueTypeSet (fullatom) by default
: will use centroid if in::file::centroid_input is true
example(s):
pose_from_file(pose,"YFP.pdb")
See also:
Pose
PDBInfo
16. pose_from_file(pose : rosetta.core.pose.Pose, filename : str, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> NoneType
Reads in data from input PDB <filename> and stores it in the Pose
<pose>, uses the FA_STANDARD ResidueTypeSet (fullatom) by default
: will use centroid if in::file::centroid_input is true
example(s):
pose_from_file(pose,"YFP.pdb")
See also:
Pose
PDBInfo
17. pose_from_file(pose : rosetta.core.pose.Pose, filename : str, options : core::import_pose::ImportPoseOptions) -> NoneType
18. pose_from_file(pose : rosetta.core.pose.Pose, filename : str, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool) -> NoneType
19. pose_from_file(pose : rosetta.core.pose.Pose, filename : str, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> NoneType
20. pose_from_file(poses : rosetta.utility.vector1_core_pose_Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str) -> NoneType
Reads data from an input PDB containing multiple models named
<filename> and stores it in a vector of Pose objects named <poses> using
ResidueTypeSet <residue_set>
21. pose_from_file(poses : rosetta.utility.vector1_core_pose_Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, read_fold_tree : bool) -> NoneType
Reads data from an input PDB containing multiple models named
<filename> and stores it in a vector of Pose objects named <poses> using
ResidueTypeSet <residue_set>
22. pose_from_file(poses : rosetta.utility.vector1_core_pose_Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> NoneType
Reads data from an input PDB containing multiple models named
<filename> and stores it in a vector of Pose objects named <poses> using
ResidueTypeSet <residue_set>
23. pose_from_file(poses : rosetta.utility.vector1_core_pose_Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, options : core::import_pose::ImportPoseOptions) -> NoneType
24. pose_from_file(poses : rosetta.utility.vector1_core_pose_Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool) -> NoneType
25. pose_from_file(poses : rosetta.utility.vector1_core_pose_Pose, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> NoneType
26. pose_from_file(poses : rosetta.utility.vector1_core_pose_Pose, filename : str) -> NoneType
Reads data from an input PDB containing multiple models named
<filename> and stores it in a vector of Pose objects named <poses>
using the FA_STANDARD ResidueTypeSet (fullatom)
27. pose_from_file(poses : rosetta.utility.vector1_core_pose_Pose, filename : str, read_fold_tree : bool) -> NoneType
Reads data from an input PDB containing multiple models named
<filename> and stores it in a vector of Pose objects named <poses>
using the FA_STANDARD ResidueTypeSet (fullatom)
28. pose_from_file(poses : rosetta.utility.vector1_core_pose_Pose, filename : str, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> NoneType
Reads data from an input PDB containing multiple models named
<filename> and stores it in a vector of Pose objects named <poses>
using the FA_STANDARD ResidueTypeSet (fullatom)
- pose_from_pdbstring(...) method of builtins.PyCapsule instance
- pose_from_pdbstring(*args, **kwargs)
Overloaded function.
1. pose_from_pdbstring(pose : rosetta.core.pose.Pose, pdbcontents : str) -> NoneType
2. pose_from_pdbstring(pose : rosetta.core.pose.Pose, pdbcontents : str, filename : str) -> NoneType
3. pose_from_pdbstring(pose : rosetta.core.pose.Pose, pdbcontents : str, options : core::import_pose::ImportPoseOptions) -> NoneType
4. pose_from_pdbstring(pose : rosetta.core.pose.Pose, pdbcontents : str, options : core::import_pose::ImportPoseOptions, filename : str) -> NoneType
5. pose_from_pdbstring(pose : rosetta.core.pose.Pose, pdbcontents : str, residue_set : rosetta.core.chemical.ResidueTypeSet, filename : str) -> NoneType
6. pose_from_pdbstring(pose : rosetta.core.pose.Pose, pdbcontents : str, residue_set : rosetta.core.chemical.ResidueTypeSet, options : core::import_pose::ImportPoseOptions, filename : str) -> NoneType
- poses_from_files(...) method of builtins.PyCapsule instance
- poses_from_files(*args, **kwargs)
Overloaded function.
1. poses_from_files(filenames : rosetta.utility.vector1_std_string) -> rosetta.utility.vector1_core_pose_Pose
2. poses_from_files(filenames : rosetta.utility.vector1_std_string, read_fold_tree : bool) -> rosetta.utility.vector1_core_pose_Pose
3. poses_from_files(filenames : rosetta.utility.vector1_std_string, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> rosetta.utility.vector1_core_pose_Pose
4. poses_from_files(residue_set : rosetta.core.chemical.ResidueTypeSet, filenames : rosetta.utility.vector1_std_string, read_fold_tree : bool) -> rosetta.utility.vector1_core_pose_Pose
5. poses_from_files(residue_set : rosetta.core.chemical.ResidueTypeSet, filenames : rosetta.utility.vector1_std_string, read_fold_tree : bool, type : rosetta.core.import_pose.FileType) -> rosetta.utility.vector1_core_pose_Pose
- read_additional_pdb_data(...) method of builtins.PyCapsule instance
- read_additional_pdb_data(*args, **kwargs)
Overloaded function.
1. read_additional_pdb_data(file : str, pose : rosetta.core.pose.Pose, fd : rosetta.core.io.StructFileRep) -> NoneType
2. read_additional_pdb_data(file : str, pose : rosetta.core.pose.Pose, fd : rosetta.core.io.StructFileRep, read_fold_tree : bool) -> NoneType
3. read_additional_pdb_data(file : str, pose : rosetta.core.pose.Pose, options : core::import_pose::ImportPoseOptions) -> NoneType
4. read_additional_pdb_data(file : str, pose : rosetta.core.pose.Pose, options : core::import_pose::ImportPoseOptions, read_fold_tree : bool) -> NoneType
- read_all_poses(...) method of builtins.PyCapsule instance
- read_all_poses(filenames : rosetta.utility.vector1_std_string, poses : rosetta.utility.vector1_core_pose_Pose) -> NoneType
special Tracer instance acting as special param for all traced_dump_pdb functions
extern basic::Tracer TR_dump_pdb_dummy;
|