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Seg3D
2.4
Seg3D is a free volume segmentation and processing tool developed by the NIH Center for Integrative Biomedical Computing at the University of Utah Scientific Computing and Imaging (SCI) Institute.
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Seg3D
2.4
Seg3D is a free volume segmentation and processing tool developed by the NIH Center for Integrative Biomedical Computing at the University of Utah Scientific Computing and Imaging (SCI) Institute.
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Public Member Functions | |
| void | add_group_id (std::string &group_id) |
| void | add_layer_id (std::string &layer_id) |
| void | add_layer_id_list (std::vector< std::string > &layer_id_list) |
| virtual bool | translate (Core::ActionContextHandle &context) |
| ProvenanceIDList | get_input_provenance_ids () |
| void | set_output_provenance_ids (const ProvenanceIDList &provenance_ids) |
| ProvenanceID | get_output_provenance_id (size_t index=0) |
| ProvenanceIDList | get_output_provenance_ids (size_t num_provenance_ids=0) |
| void | generate_output_provenance_ids (size_t num_provenance_ids) |
| std::string | export_params_to_provenance_string (bool single_input=false) const |
 Public Member Functions inherited from Core::Action | |
| virtual ActionInfoHandle | get_action_info () const =0 |
| std::string | get_definition () const |
| Get the definition of the action (in XML format) | |
| std::string | get_type () const |
| Get the type of the action. | |
| std::string | get_usage () const |
| Get a usage description. | |
| std::string | get_key (size_t index) const |
| Get the name of the key with a certain index. | |
| std::string | get_default_key_value (size_t index) const |
| Get the name of the key with a certain index. | |
| int | get_key_index (const std::string &name) const |
| Get the index of a certain key. | |
| bool | is_undoable () const |
| Check whether the action is undoable. | |
| virtual bool | changes_project_data () |
| virtual bool | validate (ActionContextHandle &context)=0 |
| virtual bool | run (ActionContextHandle &context, ActionResultHandle &result)=0 |
| virtual void | clear_cache () |
| std::string | export_to_string () const |
| bool | import_from_string (const std::string &action, std::string &error) |
| bool | import_from_string (const std::string &action) |
| Same as function above, but without the error report. | |
Additional Inherited Members | |
| Protected Member Functions inherited from Core::Action | |
| template<class T > | |
| void | add_parameter (T ¶meter) |
| void | add_param (ActionParameterBase *parameter) |
| Add a parameter to the internal structure of the action. | |
| ActionParameterBase * | get_param (size_t index) const |
| Retrieve the parameter from the internal structure of the action. | |
| const size_t | num_params () const |
| Number of parameter in this action. | |
| void Seg3D::LayerAction::add_group_id | ( | std::string & | group_id | ) |
ADD_GROUP_ID Add group id as an input parameter NOTE: This will switch on provenance tracking
| void Seg3D::LayerAction::add_layer_id | ( | std::string & | layer_id | ) |
ADD_LAYER_ID Add layer id as an input parameter NOTE: This will switch on provenance tracking
| void Seg3D::LayerAction::add_layer_id_list | ( | std::vector< std::string > & | layer_id_list | ) |
ADD_LAYER_ID_LIST Add layer id lsit as an input parameter NOTE: This will switch on provenance tracking
| std::string Seg3D::LayerAction::export_params_to_provenance_string | ( | bool | single_input = false | ) | const |
EXPORT_PARAMS_TO_PROVENANCE_STRING: Export the action parameters to a string and mark the provenance inputs with special placeholders.
| void Seg3D::LayerAction::generate_output_provenance_ids | ( | size_t | num_provenance_ids | ) |
GENERATE_OUTPUT_PROVENANCE_IDS: Generate all needed provenance ids
| ProvenanceIDList Seg3D::LayerAction::get_input_provenance_ids | ( | ) |
NOTE: Dependency lists need to inserted into a ProvenanceRecord and hence this function can only be called from within run_layer_action or validate_layer_action GET_INPUT_PROVENANCE_IDS: Get the dependencies that this action is depending on
| ProvenanceID Seg3D::LayerAction::get_output_provenance_id | ( | size_t | index = 0 | ) |
GET_OUTPUT_PROVENANCE_ID: Get the provenance id of output layer indexed by index. If no provenance id was assigned a new one is created
| ProvenanceIDList Seg3D::LayerAction::get_output_provenance_ids | ( | size_t | num_provenance_ids = 0 | ) |
GET_OUTPUT_PROVENANCE_IDS: Get or create all the assigned provenance ids
| void Seg3D::LayerAction::set_output_provenance_ids | ( | const ProvenanceIDList & | provenance_ids | ) |
SET_OUTPUT_PROVENANCE_IDS: Set the output provenance ids
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virtual |
TRANSLATE: Some actions need to be translated before they can be validated. Translate takes care of most provenance related issue, by for example translating the provenance information into real action information. This function is called before validate NOTE: This function is not const and may alter the values of the parameters and correct faulty input.
Reimplemented from Core::Action.
1.8.10
