func_new.json

{
      "id": "reproin_func_file",
      "template": "func_file",
      "where": {
        "container_type": "file",
        "parent_container_type": "acquisition",
        "file.type": {
          "$in": [
            "nifti",
            "NIfTI",
            "source code",
            "JSON"
          ]
        },
        "file.classification.Intent": {
          "$in": [
            "Functional"
          ]
        },
        "acquisition.label": {
          "$regex": "(?!.*PhysioLog.*).*(func((-|_).+|$))"
        }
      },
      "initialize": {
        "Task": {
          "acquisition.label": {
            "$regex": "(^|_)task-(?P<value>.*?)(_(acq|ce|dir|echo|mod|proc|part|rec|recording|run|task)-|$|_)"
          }
        },
        "Acq": {
          "acquisition.label": {
            "$regex": "(^|_)acq-(?P<value>.*?)(_(acq|ce|dir|echo|mod|proc|part|rec|recording|run|task)-|$|_)"
          }
        },
        "Ce": {
          "acquisition.label": {
            "$regex": "(^|_)ce-(?P<value>.*?)(_(acq|ce|dir|echo|mod|proc|part|rec|recording|run|task)-|$|_)"
          }
        },
        "Rec": {
          "acquisition.label": {
            "$regex": "(^|_)rec-(?P<value>.*?)(_(acq|ce|dir|echo|mod|proc|part|rec|recording|run|task)-|$|_)"
          }
        },
        "Dir": {
          "acquisition.label": {
            "$regex": "(^|_)dir-(?P<value>.*?)(_(acq|ce|dir|echo|mod|proc|part|rec|recording|run|task)-|$|_)"
          }
        },
        "Run": {
          "acquisition.label": {
            "$regex": [
              "(^|_)run-(?P<value>\\d+)(_|$)",
              "(^|_)run-(?P<value>[=+])(_|$)"
            ]
          },
          "$run_counter": {
            "key": "func.{file.info.BIDS.Task}.{file.info.BIDS.Suffix}.{file.type}"
          }
        },
        "Echo": {
          "file.name": {
            "$regex": "^.*_e(?P<value>\\d+)(\\.nii.*|\\.json)$",
            "$format": [
              {
                "$replace": {
                  "$pattern": "^(\\d{1})$",
                  "$replacement": "0\\1"
                }
              }
            ]
          }
        },
        "Part": {
          "acquisition.label": {
            "$regex": "(^|_)part-(?P<value>.*?)(_(acq|ce|dir|echo|mod|proc|part|rec|recording|run|task)-|$|_)"
          }
        },
        "Suffix": {
          "$switch": {
            "$on": "acquisition.label",
            "$cases": [
              {
                "$regex": ".*_SBRef$|.*_sbref$",
                "$value": "sbref"
              },
              {
                "$regex": ".*_cbv$",
                "$value": "cbv"
              },
              {
                "$regex": ".*_phase$",
                "$value": "phase"
              },
              {
                "$default": true,
                "$value": "bold"
              }
            ]
          }
        }
      }
    }