Scriptupdate (#16)

* added gain output

* Added directory GalPoisson with two python scripts for creating noise realizations for Poisson bias corrections.

* moved GalPoisson files to src/romanimpreprocess/L1_to_L2

* Include pseudo-Poisson realizations in L1_to_L2 gen_noise_image.py. Updated docstrings in GalPoisson.

* Same as my previous commit but used git add correctly this time and fixed importing functions from GalPoisson into gen_noise_image.py

* Update L1_to_L2_README.rst

Added short description of pseudo-Poisson noise bias correction noise layer "O".

* Update pyproject.toml

* Changed clipping for Galpoisson draw_with_tilnus from 3 to 0.01 and updated docstring for find_tilnus

* Update gen_noise_image.py

Added trimming of reference pixels in `O` noise realization; also removed an unneeded copy.

* Update gen_noise_image.py

In `O` noise option, I removed the loop iteration over ending slice == starting slice (which will not be able to give a slope).

* Update gen_noise_image.py

Removed `tilnu42` from Pearson distribution call in noise generator (this was not supposed to be an argument).

* Create build-documentation.yml

* Create pre-commit-ci.yml

* Update gen_noise_image.py

reformat suggested by ruff

* implemented change of units on tilde nu_{nk}

* job scripts

---------

Co-authored-by: Michael Gabe <gabe.7@osu.edu>

Author: hirata10

runs/summer2025run/OpenUniverse_to_L1L2.job

@@ -1,6 +1,6 @@
 #!/bin/bash
 #SBATCH --job-name=sim
-#SBATCH --account=PCON0003
+#SBATCH --account=PAS2340
 #SBATCH --array=1-18
 #SBATCH --time=96:00:00
 #SBATCH --nodes=1

runs/summer2025run/OpenUniverse_to_L1L2.py

@@ -119,9 +119,18 @@ def findcal(ctype, sca):
         "RAMP_OPT_PARS": {"slope": 0.4, "gain": 1.8, "sigma_read": 7.0},
         "JUMP_DETECT_PARS": {"SthreshA": 5.5, "SthreshB": 4.5, "IthreshA": 0.6, "IthreshB": 600.0},
         "SKYORDER": 2,
-        "FITSOUT": sca == 4,  # save SCA #4.
+        "FITSOUT": False,
         "NOISE": {
-            "LAYER": ["Rz4PbrS2C1", "Rz4PbrS2C2", "Rz4PrS2C3", "Rz4PrS2C4"],
+            "LAYER": [
+                "Rz4PbrS2C1",
+                "Rz4PbrS2C2",
+                "Rz4PbrS2C3",
+                "Rz4PbrS2C4",
+                "Rz4OS2C5",
+                "Rz4OS2C6",
+                "Rz4OS2C7",
+                "Rz4OS2C8",
+            ],
             "TEMP": temp_dir + f"/temp_{band:s}_{obsid:d}_{sca:d}.asdf",
             "SEED": seed,
             "OUT": output_dir + f"/L2/sim_L2_{band:s}_{obsid:d}_{sca:d}_noise.asdf",