updating readme

Author: djarecka

README.md

@@ -24,11 +24,11 @@ pip install /path/to/pydra-fsl/
 `FSLConverter` class (from `tools/converter.py`) requires three parts of information:
 
 - Nipype spec: converter loads nipype interface and reads `_cmd`, `input_spec` and `output_spec`
-- yml file with additional spec: `specs/fsl_conv_params.yml` contains additional spec that are written based 
+- yml file with additional spec: `specs/fsl_{module_name}_params.yml` contains additional spec that are written based 
 on additional functions from nipype (including `list_outputs`), each interface can have the following fields:
     - inputs_metadata: additional metadata for fields from input_spec 
     (it will be included in `metadata` in pydra spec), 
-    e.g., used for `FAST` to set default value for `number_classes` 
+    e.g., used in `specs/fsl_preprocess_params.yml` for `FAST` to set default value for `number_classes` 
     (it's not part of nipype's spec, but it's set in `list_output`)
 
     - output_requirements: providing required fields for the output to be created, 
@@ -61,7 +61,10 @@ The converter can be used by running:
 
     python tools/converter.py --interface_name <name of teh interface> --module_name <module_name>
 
-The pydra task will be created in saved in `pydra/tasks/fsl/{module_name}/{interface_name}.py`
+The pydra task will be created and saved in `pydra/tasks/fsl/{module_name}/{interface_name}.py`.
+Note, that the spec file has to be present for the specific module name in order to run the converter.
+If no `interface_name` is provided, the default value `all` will be used
+ and the converter will be run for all interfaces from the spec file.
 
 Tests are written based on the fields from the yml file: 
 `tests_inputs` and `tests_outputs` (the lengths should be the same).