 |
Structural Bioinformatics Library
Template C++ / Python API for developping structural bioinformatics applications.
|
|
Structural Bioinformatics Library
Template C++ / Python API for developping structural bioinformatics applications.
|
Loading | |
| def | set_dataset (self, dataset) |
| Set the current dataset from an existing dataset. More... | |
| def | add_run_specification (self, run_specification) |
| Add a simple run specification to the batch. More... | |
| def | load_dataset (self, directory, file_name_re=".*", recursive=False) |
| Load the dataset from a directory. More... | |
| def | check_specification (self) |
| Check that the loaded specification is correct. More... | |
| def | load_run_specification (self, file_name) |
| Load the specification of the runs from a specification file. More... | |
Building the Runs | |
| def | build_run_commands (self) |
| Builds the run specifications of each run of the batch, and return them. More... | |
| def | split_per_IFO (self) |
| Split the batch such that each new batch is invariant w.r.t the IFO. More... | |
| def | split_per_NFO (self) |
| Split the batch such that each new batch is invariant w.r.t the NFO. More... | |
| def | split_per_selected_NFO_option (self, option_name) |
| Split the batch such that the new batch is invariant w.r.t the input NFO name. More... | |
| def | split_per_selected_IFO_option (self, option_name) |
| Split the batch such that the new batch is invariant w.r.t the input IFO name. More... | |
| def | split_per_selected_option (self, option_name) |
| Split the batch such that the new batch is invariant w.r.t the input option. More... | |
| def | split_per_selected_options (self, option_names) |
| Same as previous but do it recursively over a list of option names. More... | |
Accessing the Runs | |
| def | get_output_directory (self) |
| Simple access to the directory where the runs of the batch are run. More... | |
| def | set_output_directory_prefix (self, prefix) |
| Sets a prefix for the output directory where the runs of the batch are run. More... | |
| def | set_output_directory (self, output_directory) |
| Sets the output directory, where the runs of the batch are run. More... | |
| def | get_run_commands (self) |
| Simple access to the run specification of each run. More... | |
Starting the Runs | |
| def | print_batch (self) |
| Print all the run commands from the list of specifications. More... | |
| def | get_lists_of_run_options (self) |
| Return a list of run options for each run in the batch. More... | |
| def | run (self, nb_instances=1) |
| Does the runs nb_instances times. More... | |
| def | repeat (self, nb_instances) |
| Synonym of run, but the number of instances has no default value. More... | |
| def | make_scripts (self) |
| Make one file per execution instead of runnning them. More... | |
Definition of a batch with a data set, and specification of runs. The functionnality are :
1.9.1