Stage 1

The following steps are part of the Coron1Pipeline custom version of the JWST pipeline’s Detector1Pipeline.

Note, the coron1pipeline.run_obs() function provides a succinct interface to create and invoke Coron1Pipeline on all observations in a spaceKLIP Database; that’s the recommended way to invoke Coron1Pipeline.

group_scale

Identical to default Detector1Pipeline

dq_init

Identical to default Detector1Pipeline

saturation

For MIRI, identical to default Detector1Pipeline

For NIRCam, depending on parameters flag_rcsat and grow_diagonal and n_pix_grow_sat, may do some custom flagging of which pixels should be flagged around saturated pixels.

Custom step, TBD write more docs for this

Parameters you may wish to adjust for your data:

flag_rcsat. Default = False.
grow_diagonal. Default = False.
n_pix_grow_sat

ipc

Identical to default Detector1Pipeline

firstframe, lastframe, reset

(Only for MIRI) Identical to default Detector1Pipeline

superbias

(Only for NIRCam) Identical to default Detector1Pipeline

refpix

(Applies to both NIRCam and MIRI, but in different orders with other pipeline steps – before linearity for NIRCam, after for MIRI??)

Custom step, TBD write docs here for this

For MIRI, runs identical to default Detector1Pipeline.

For NIRCam, for subarray images, runs a custom step to do “psuedo” reference pixel subtraction using pixels around the edge of the subarray.

Parameters you may wish to adjust for your data:

nlower, nupper, nleft, nright: number of pixels around each edge to treat as pseudo-refpix. (left and right may not actually do anything, TBC?)

linearity

Identical to default Detector1Pipeline

rscd

(Only for MIRI) Identical to default Detector1Pipeline

dark_current, charge_migration, jump

Identical to default Detector1Pipeline

subtract_ktc

(Only for NIRCam) Custom step for removal of kTc noise.

Custom step, TBD write docs here for this

subtract_1overf

(Only for NIRCam) Custom step for removal of one over f noise, optimized for coronagraphic data using. This can be run either at the groups stage or at the ramp stage (i.e. before or after ramp fitting)

Custom step, TBD write docs here for this

ramp_fit

Identical to default Detector1Pipeline

apply_rateints_outliers

Custom step to Flag additional outliers by comparing rateints and refit ramp

Custom step, TBD write docs here for this

gain_scale

Identical to default Detector1Pipeline. Applied to both the rate and rateints outputs, as standard.