How to make TESS FITS cubes using Astrocut and MAST

cube_maker.py

# Author: Arfon Smith, Space Telescope Science Institute
# This script assumes the `s3://stpubdata` bucket is mounted at `/home/ubuntu/data`
# using the goofys tool (https://github.com/kahing/goofys)

import astroquery
from astrocut import CubeFactory
from astropy.io import fits
import numpy as np
import boto3
import os
from astroquery.mast import Catalogs, Observations
# We (currently) have two sectors of data, there are four cameras, and four chips per-camera.
# We want to make files named e.g. tess-s0001-1-1-cube.fits
sectors = ['0001', '0002']
cameras = [1,2,3,4]
chips = [1,2,3,4]

for sector in sectors:
  for camera in cameras:
    for chip in chips:
      output_file = f"tess-s{sector}-{camera}-{chip}-cube.fits"
      print(f"Working with {output_file}")

      # Grab the observations from MAST for this given sector/camera/chip
      obsTable = Observations.query_criteria(obs_id=f"tess-s{sector}-{camera}-{chip}")

      # Next grab the products and filter for only the calibrated FFIs (FFIC files)
      products = Observations.get_product_list(obsTable)
      filtered = Observations.filter_products(products,
                                        productSubGroupDescription="FFIC",
                                        mrp_only=False)
      # Turn on the S3 URLs
      Observations.enable_cloud_dataset()

      print(f"Grabbing S3 URLs for {output_file}")
      s3_urls = Observations.get_cloud_uris(filtered)

      input_files = []
      # Loop through each URL and replace the s3://stpubdata/ prefix with the local path to the directory
      # mounted with goofys
      for url in s3_urls:
          local_file_path = url.replace("s3://stpubdata/", "/home/ubuntu/data/")
          input_files.append(local_file_path)

      # Initialize a CubeFactory and pass it the input files and the output filename
      cuber = CubeFactory()
      cube_file = cuber.make_cube(input_files, cube_file=output_file, sector=int(sector))

LICENSE

BSD 3-Clause License

Copyright (C) 2010-2018 Association of Universities for Research in Astronomy (AURA)
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  this software without specific prior written permission.

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setup.txt

# Launch a big instance (c5d.9xlarge)
# Give it ~2000GB of local storage.
# Start with Ubuntu 18.04 LTS (ami-0ac019f4fcb7cb7e6)
# Update and install software:

sudo apt update
sudo apt install python3-pip
sudo pip3 install scipy
sudo pip3 install numpy
sudo pip3 install astropy
sudo pip3 install boto3
sudo pip3 install https://github.com/astropy/astroquery/archive/master.zip
sudo pip3 install https://github.com/spacetelescope/astrocut/archive/master.zip

# Set up the credentials file (this is needed by goofys and astroquery)
touch nano .aws/credentials

# This one will be picked up by Astroquery
[default]
aws_access_key_id = XXXXX
aws_secret_access_key = XXXXX

# Use this one at the end to write to the S3 stpubdata bucket with permission
[tess]
aws_access_key_id = XXXXX
aws_secret_access_key = XXXXX

Install goofys: https://gist.github.com/arfon/d93c788b4dcfd12029c8fb0d2fdeeb4c

# Make the files (using cube_maker.py)
# Finally copy the files to s3://stpubdata/tess/public/mast/...

# Finally regenerate the top level manifest.txt with `find . -type f > manifest.txt`