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Adding argparse and fixing plotting limits on the edge #79

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Dec 11, 2023
Merged

Adding argparse and fixing plotting limits on the edge #79

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27 changes: 18 additions & 9 deletions src/ullyses/make_preview_plots.py
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Original file line number Diff line number Diff line change
Expand Up @@ -3,14 +3,10 @@
import os
import numpy as np
import plotly.graph_objects as go
import astropy.units as u
from plotly.subplots import make_subplots
from itertools import repeat

from astropy.io import fits
from copy import deepcopy
from specutils import Spectrum1D, SpectralRegion
from specutils.manipulation import extract_region

from ullyses_utils.match_aliases import match_aliases
from ullyses_utils.parse_csv import parse_database_csv
Expand Down Expand Up @@ -142,6 +138,10 @@ def get_max_flux(wave, flux, gratings, dlam=10.):
# set the flux to zero in that region
flux[wh_grating] = 0.

# remove the edges just to be sure. There are some with weird edges like CHX-18N
if len(flux) > 300: # in case it is only COS/NUV for some reason
flux = flux[100:-100]

return flux.max()

#-------------------------------------------------------------------------------
Expand Down Expand Up @@ -380,16 +380,25 @@ def make_plots(base_datadir, outdir_name, dr):

if __name__ == "__main__":

# Trying to make more color-blind accesible.
parser = argparse.ArgumentParser()
parser.add_argument("-i", "--datadir", type=str, default=".",
help="Top level directory to search for files, where \
everything below is sorted into seaprate directories\
by target name.")
parser.add_argument("-o", "--outdir", type=str, default='.',
help="Directory to save the outputs. Default is the current directory, \
with two new sub-directories: lowmass and highmass.")
parser.add_argument("-d", "--datarelease", type=int, default='7',
help="Integer value of the ULLYSES data release. Default is 7.")
args = parser.parse_args()

# Trying to make more color-blind accessible.
CSPEC_COLORS = ['#d8c53b', '#8ab445', '#93c8b5', '#3a9dab', '#4f88cc',
'#7480d6', '#9075d3', '#b371c4'] # yellow -> green-> blue
ASPEC_COLORS = ['#b19bc2', '#82569c', '#4e2a67', '#859a87', '#255b2b',
'#47834f', '#95b399'] # purples -> green (if needed)

datadir = "/astro/ullyses/ULLYSES_HLSP/"
outdir = '/astro/ullyses/preview_plots/' # sorted into dr#/<highmass/lowmass>
dr = 7 # data release number
no_previews = make_plots(datadir, outdir, dr)
no_previews = make_plots(args.datadir, args.outdir, args.datarelease)
print('No files for:')
for p in no_previews:
print(f"{p}; {glob.glob(os.path.join(p, '*'))}")
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