jd2 → core Relation

File in src/protocols/jd2	Includes file in src/core
archive / ArchiveBase.cc	chemical / ChemicalManager.hh
archive / ArchiveBase.cc	kinematics / Jump.hh
archive / ArchiveBase.cc	pose / Pose.hh
archive / ArchiveBase.cc	conformation / Residue.hh
archive / ArchiveBase.cc	scoring / ScoreFunction.hh
archive / ArchiveBase.cc	scoring / ScoreFunctionFactory.hh
archive / ArchiveBase.cc	io / silent / SilentFileData.hh
archive / ArchiveBase.cc	io / silent / SilentFileOptions.hh
archive / ArchiveBase.hh	pose / Pose.fwd.hh
archive / ArchiveBase.hh	scoring / ScoreFunction.fwd.hh
archive / ArchiveBase.hh	io / silent / silent.fwd.hh
archive / ArchiveBase.hh	types.hh
archive / ArchiveManager.cc	io / silent / SilentFileData.hh
archive / ArchiveManager.cc	io / silent / SilentFileOptions.hh
archive / ArchiveManager.hh	io / silent / silent.fwd.hh
archive / ArchiveManager.hh	types.hh
AtomTreeDiffJobInputter.cc	import_pose / import_pose.hh
AtomTreeDiffJobInputter.cc	pose / Pose.hh
AtomTreeDiffJobInputter.hh	import_pose / atom_tree_diffs / atom_tree_diff.hh
AtomTreeDiffJobInputter.hh	pose / Pose.fwd.hh
AtomTreeDiffJobOutputter.cc	import_pose / atom_tree_diffs / atom_tree_diff.hh
AtomTreeDiffJobOutputter.cc	pose / Pose.hh
AtomTreeDiffJobOutputter.hh	import_pose / atom_tree_diffs / atom_tree_diff.hh
AtomTreeDiffJobOutputter.hh	pose / Pose.hh
BatchJobInputter.hh	pose / Pose.fwd.hh
BOINCJobDistributor.cc	io / silent / util.hh
BOINCJobDistributor.hh	types.hh
EmptyPoseJobInputter.cc	pose / Pose.hh
EmptyPoseJobInputter.cc	sequence / util.hh
EmptyPoseJobInputter.cc	pose / symmetry / util.hh
EmptyPoseJobInputter.hh	pose / Pose.fwd.hh
archive / EvaluatedArchive.cc	scoring / Energies.hh
archive / EvaluatedArchive.cc	pose / Pose.hh
archive / EvaluatedArchive.cc	scoring / ScoreFunction.hh
archive / EvaluatedArchive.cc	io / silent / SilentFileData.hh
archive / EvaluatedArchive.hh	scoring / constraints / ConstraintSet.fwd.hh
archive / EvaluatedArchive.hh	pose / Pose.fwd.hh
archive / EvaluatedArchive.hh	scoring / ResidualDipolarCoupling.fwd.hh
archive / EvaluatedArchive.hh	io / silent / silent.fwd.hh
archive / EvaluatedArchive.hh	types.hh
FileJobOutputter.cc	pose / datacache / CacheableDataType.hh
FileJobOutputter.cc	scoring / Energies.hh
FileJobOutputter.cc	pose / Pose.hh
FileJobOutputter.cc	io / raw_data / ScoreFileData.hh
FileJobOutputter.cc	io / raw_data / ScoreMap.hh
FileJobOutputter.hh	pose / Pose.fwd.hh
FileSystemJobDistributor.hh	types.hh
InnerJob.cc	pose / Pose.hh
InnerJob.cc	pose / util.hh
InnerJob.hh	pose / Pose.fwd.hh
InnerJob.hh	types.hh
InnerMultiThreadingJob.cc	pose / Pose.hh
InnerMultiThreadingJob.hh	pose / Pose.fwd.hh
InnerMultiThreadingJob.hh	sequence / SequenceAlignment.fwd.hh
InnerMultiThreadingJob.hh	types.hh
internal_util.cc	chemical / ChemicalManager.hh
internal_util.cc	import_pose / import_pose.hh
internal_util.cc	pose / Pose.hh
internal_util.cc	io / silent / SilentFileData.hh
internal_util.cc	io / silent / SilentFileOptions.hh
internal_util.cc	io / silent / SilentStruct.hh
internal_util.cc	io / silent / SilentStructFactory.hh
internal_util.hh	pose / Pose.fwd.hh
internal_util.hh	io / silent / SilentStruct.fwd.hh
internal_util.hh	types.hh
JD2ResourceManagerJobInputter.cc	chemical / ChemicalManager.hh
JD2ResourceManagerJobInputter.cc	conformation / Conformation.hh
JD2ResourceManagerJobInputter.cc	pose / Pose.hh
JD2ResourceManagerJobInputter.cc	chemical / PoseResidueTypeSet.hh
JD2ResourceManagerJobInputter.cc	chemical / ResidueType.hh
JD2ResourceManagerJobInputter.cc	chemical / ResidueTypeSet.hh
Job.cc	pose / Pose.hh
Job.hh	pose / Pose.fwd.hh
Job.hh	types.hh
JobDistributor.cc	pose / Pose.hh
JobDistributor.cc	scoring / ScoreFunction.hh
JobDistributor.cc	scoring / ScoreFunctionFactory.hh
JobDistributor.cc	pose / symmetry / util.hh
JobDistributor.hh	pose / Pose.fwd.hh
JobDistributor.hh	types.hh
JobInputter.cc	pose / Pose.hh
JobInputter.hh	pose / Pose.fwd.hh
JobInputter.hh	types.hh
JobOutputter.hh	pose / Pose.fwd.hh
JobOutputter.hh	io / silent / SilentStruct.fwd.hh
JobOutputterObserver.hh	pose / Pose.fwd.hh
JobsContainer.hh	pose / Pose.fwd.hh
JobsContainer.hh	types.hh
LargeNstructJobInputter.cc	pose / annotated_sequence.hh
LargeNstructJobInputter.cc	chemical / ChemicalManager.fwd.hh
LargeNstructJobInputter.cc	pose / Pose.hh
LargeNstructJobInputter.cc	sequence / util.hh
LargeNstructJobInputter.cc	pose / symmetry / util.hh
LargeNstructJobInputter.hh	pose / Pose.fwd.hh
LazySilentFileJobInputter.cc	pose / extra_pose_info_util.hh
LazySilentFileJobInputter.cc	pose / Pose.hh
LazySilentFileJobInputter.cc	io / silent / SilentFileOptions.hh
LazySilentFileJobInputter.hh	pose / Pose.fwd.hh
LazySilentFileJobInputter.hh	io / silent / SilentFileData.hh
LazySilentFileJobInputter.hh	io / silent / SilentStruct.fwd.hh
mmCIFJobOutputter.cc	pose / datacache / CacheableDataType.hh
mmCIFJobOutputter.cc	io / mmcif / cif_writer.hh
mmCIFJobOutputter.cc	pose / Pose.hh
mmCIFJobOutputter.cc	io / StructFileRep.fwd.hh
mmCIFJobOutputter.cc	io / StructFileRepOptions.hh
mmCIFJobOutputter.cc	types.hh
mmCIFJobOutputter.cc	io / util.hh
mmCIFJobOutputter.hh	pose / Pose.fwd.hh
mmCIFJobOutputter.hh	io / StructFileRep.fwd.hh
mmtfJobOutputter.cc	pose / datacache / CacheableDataType.hh
mmtfJobOutputter.cc	io / mmtf / mmtf_writer.hh
mmtfJobOutputter.cc	pose / Pose.hh
mmtfJobOutputter.cc	io / StructFileRep.fwd.hh
mmtfJobOutputter.cc	io / StructFileRepOptions.hh
mmtfJobOutputter.cc	types.hh
mmtfJobOutputter.cc	io / util.hh
mmtfJobOutputter.hh	pose / Pose.fwd.hh
mmtfJobOutputter.hh	io / StructFileRep.fwd.hh
archive / MPIArchiveJobDistributor.hh	pose / Pose.fwd.hh
archive / MPIArchiveJobDistributor.hh	types.hh
MpiFileBuffer.hh	types.hh
MPIFileBufJobDistributor.hh	pose / Pose.fwd.hh
MPIFileBufJobDistributor.hh	types.hh
MPIMultiCommJobDistributor.hh	pose / Pose.fwd.hh
MPIMultiCommJobDistributor.hh	types.hh
MPIWorkPartitionJobDistributor.hh	pose / Pose.fwd.hh
MPIWorkPartitionJobDistributor.hh	types.hh
MPIWorkPoolJobDistributor.hh	pose / Pose.fwd.hh
MPIWorkPoolJobDistributor.hh	types.hh
MultiThreadingJob.cc	types.hh
MultiThreadingJob.hh	pose / Pose.fwd.hh
MultiThreadingJob.hh	types.hh
NoOutputJobOutputter.hh	pose / Pose.fwd.hh
archive / NormalizedEvaluatedArchive.cc	scoring / ScoreFunction.hh
archive / NormalizedEvaluatedArchive.hh	scoring / constraints / ConstraintSet.fwd.hh
archive / NormalizedEvaluatedArchive.hh	pose / Pose.fwd.hh
archive / NormalizedEvaluatedArchive.hh	scoring / ResidualDipolarCoupling.fwd.hh
archive / NormalizedEvaluatedArchive.hh	io / silent / silent.fwd.hh
archive / NormalizedEvaluatedArchive.hh	types.hh
PDBJobInputter.cc	import_pose / import_pose.hh
PDBJobInputter.cc	util / metalloproteins_util.hh
PDBJobInputter.cc	pose / Pose.hh
PDBJobInputter.cc	pose / full_model_info / util.hh
PDBJobInputter.hh	pose / Pose.fwd.hh
PDBJobOutputter.cc	io / pdb / build_pose_as_is.hh
PDBJobOutputter.cc	pose / datacache / CacheableDataType.hh
PDBJobOutputter.cc	io / pdb / pdb_writer.hh
PDBJobOutputter.cc	pose / Pose.hh
PDBJobOutputter.cc	types.hh
PDBJobOutputter.cc	io / util.hh
PDBJobOutputter.hh	pose / Pose.fwd.hh
PoseInputStreamJobInputter.cc	kinematics / Jump.hh
PoseInputStreamJobInputter.cc	import_pose / pose_stream / MetaPoseInputStream.hh
PoseInputStreamJobInputter.cc	pose / Pose.hh
PoseInputStreamJobInputter.cc	conformation / Residue.hh
PoseInputStreamJobInputter.cc	chemical / ResidueTypeSet.fwd.hh
PoseInputStreamJobInputter.cc	chemical / util.hh
PoseInputStreamJobInputter.cc	import_pose / pose_stream / util.hh
PoseInputStreamJobInputter.hh	import_pose / pose_stream / MetaPoseInputStream.hh
RNA_DeNovoJobOutputter.cc	pose / datacache / CacheableDataType.hh
RNA_DeNovoJobOutputter.cc	pose / Pose.hh
RNA_DeNovoJobOutputter.cc	io / silent / SilentFileData.hh
RNA_DeNovoJobOutputter.cc	io / silent / SilentFileOptions.hh
RNA_DeNovoJobOutputter.cc	io / silent / SilentStructFactory.hh
RNA_DeNovoJobOutputter.hh	pose / Pose.fwd.hh
RNA_DeNovoJobOutputter.hh	types.hh
ScoreOnlyJobOutputter.cc	io / silent / SilentFileData.hh
ScoreOnlyJobOutputter.cc	io / silent / SilentFileOptions.hh
ScoreOnlyJobOutputter.hh	pose / Pose.fwd.hh
ScoreOnlyJobOutputter.hh	types.hh
ScreeningJobInputter.cc	chemical / ChemicalManager.hh
ScreeningJobInputter.cc	conformation / Conformation.hh
ScreeningJobInputter.cc	import_pose / import_pose.hh
ScreeningJobInputter.cc	pose / Pose.hh
ScreeningJobInputter.cc	chemical / PoseResidueTypeSet.hh
ScreeningJobInputter.cc	chemical / ResidueTypeSet.hh
ScreeningJobInputter.hh	pose / Pose.fwd.hh
SerializedPoseJobInputter.cc	import_pose / import_pose.hh
SerializedPoseJobInputter.cc	pose / Pose.hh
SerializedPoseJobInputter.hh	pose / Pose.fwd.hh
SerializedPoseJobOutputter.cc	pose / Pose.hh
SerializedPoseJobOutputter.cc	types.hh
SerializedPoseJobOutputter.cc	io / util.hh
SerializedPoseJobOutputter.hh	pose / Pose.fwd.hh
ShuffleJobDistributor.hh	types.hh
SilentFileJobInputter.cc	pose / extra_pose_info_util.hh
SilentFileJobInputter.cc	pose / Pose.hh
SilentFileJobInputter.cc	io / silent / SilentFileOptions.hh
SilentFileJobInputter.cc	pose / symmetry / util.hh
SilentFileJobInputter.hh	pose / Pose.fwd.hh
SilentFileJobInputter.hh	io / silent / SilentFileData.hh
SilentFileJobInputter.hh	io / silent / SilentStruct.fwd.hh
SilentFileJobOutputter.cc	pose / datacache / CacheableDataType.hh
SilentFileJobOutputter.cc	pose / Pose.hh
SilentFileJobOutputter.cc	io / silent / SilentFileData.hh
SilentFileJobOutputter.cc	io / silent / SilentFileOptions.hh
SilentFileJobOutputter.cc	io / silent / SilentStructFactory.hh
SilentFileJobOutputter.hh	pose / Pose.fwd.hh
SilentFileJobOutputter.hh	types.hh
SingleFileBuffer.hh	types.hh
util.cc	chemical / ChemicalManager.hh
util.cc	import_pose / import_pose.hh
util.cc	pose / Pose.hh
util.cc	io / silent / SilentFileData.hh
util.cc	io / silent / SilentFileOptions.hh
util.cc	io / silent / SilentStruct.hh
util.cc	io / silent / SilentStructFactory.hh
util.hh	pose / Pose.fwd.hh
util.hh	io / silent / SilentStruct.fwd.hh
util.hh	types.hh
archive / VarianceStatisticsArchive.cc	io / silent / SilentStruct.hh
archive / VarianceStatisticsArchive.hh	pose / Pose.fwd.hh
archive / VarianceStatisticsArchive.hh	types.hh
VectorPoseJobDistributor.cc	chemical / AA.hh
VectorPoseJobDistributor.cc	pose / extra_pose_info_util.hh
VectorPoseJobDistributor.cc	pose / Pose.hh
VectorPoseJobDistributor.cc	pack / task / ResfileReader.hh
VectorPoseJobDistributor.cc	conformation / Residue.hh
VectorPoseJobDistributor.cc	scoring / constraints / ResidueTypeConstraint.hh
VectorPoseJobDistributor.cc	scoring / ScoreFunction.hh
VectorPoseJobDistributor.cc	scoring / ScoreFunctionFactory.hh
VectorPoseJobDistributor.cc	pack / task / TaskFactory.hh
VectorPoseJobDistributor.cc	pack / task / operation / TaskOperations.hh
VectorPoseJobDistributor.cc	pose / util.hh
VectorPoseJobDistributor.hh	pose / Pose.fwd.hh
VectorPoseJobDistributor.hh	scoring / ScoreFunction.fwd.hh
wwPDBJobOutputter.cc	io / pdb / build_pose_as_is.hh
wwPDBJobOutputter.cc	pose / datacache / CacheableDataType.hh
wwPDBJobOutputter.cc	io / pdb / pdb_writer.hh
wwPDBJobOutputter.cc	pose / Pose.hh
wwPDBJobOutputter.cc	types.hh
wwPDBJobOutputter.cc	io / util.hh
wwPDBJobOutputter.hh	pose / Pose.fwd.hh