Preconfigured Files¶
Working With Preconfigured Files¶
We provide preconfigured versions of two files, :file:data_config.yml (used to define file structure templates when generating subject lists) and :file:scan_parameters.csv (used when running :doc:Slice Timing Correction data releases. While the preconfigured scan_parameters.csv files can be used unmodified, it is necessary to slightly edit the file structure templates in data_config.yml before they can be used.
For multiscan sites like the Enhanced NKI-Rockland Sample dataset, the multiscan parameters template is used. These must be modified with a path to the slice timing parameters which also available below. See Slice Timing Correction for further detail.
File structure templates in preconfigured copies of :file:data_config.yml will be prefixed with the text :file:/path/to/data. This is because though we are able to pre-define the folder structure of INDI releases, there is no way for us to know where exactly the data will be located on your specific system. You must replace :file:/path/to/data with the path to the data files downloaded from INDI. For example, if you have downloaded the ABIDE data set and placed the files in an /ABIDE directory loaded in your /home/science/ folder, you would replace /path/to/data with /home/science/ABIDE.
We also include several files configured to work with datasets stored in Amazon’s Simple Storage Service (S3) as well, to demonstrate how C-PAC can integrate with the cloud. These files end with the suffix _s3.yaml.
Downloads¶
ABIDE
- :file:data_config_abide.yaml - Download
- :file:data_config_abide_s3.yaml - Download
- :file:scan_parameters_abide.csv - Download
ADHD-200
- :file:data_config_adhd.yaml - Download
- :file:data_config_adhd_s3.yaml - Download
- :file:scan_parameters_adhd.csv - Download
1000 Functional Connectomes
- :file:data_config_fcon.yaml - Download
- :file:scan_parameters_fcon.csv - Download
Enhanced NKI-Rockland Sample
:file:data_config_nki.yaml - Download
:file:data_config_nki_s3.yaml - Download
- :file:scan_parameters_nki.csv - Download
- :file:645.txt - Download
- :file:1400.txt - Download
- :file:2500.txt - Download
- :file:dti.txt - Download