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Update NDA Upload Preparation authored by Mara Heneks's avatar Mara Heneks
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NDA-Upload-Preparation.md
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......@@ -22,7 +22,13 @@ Once you have a study setup with the appropriate configurations for the data tha
`dataorc redcap-import-api <path to dataorc redcap-nda-config dir> `
to drop the old database and re-run the steps of the workflow to create a database ready to generate the output products. Then you would ensure that you have all of the required sessions downloaded from xnat and available where you're running it, and then for nifti upload, you would run
to drop the old database and re-run the steps of the workflow to create a database ready to generate the output products.
If your project has custom sql to modify the database, run those custom sql scripts with
`dataorc redcap-apply-custom-sql <path to dataorc redcap-nda-config dir> `
Then you would ensure that you have all of the required sessions downloaded from xnat and available where you're running it, and then for nifti upload, you would run
`dataorc xnat-export-dicom-fields --host <HOST> --project <PROJECT> --sessions <SESSIONS(optional)> --dicom-fields <DICOM_FIELDS(optional)> --output-file <OUTPUT_FILE>`
......