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Add WFC3 notebook 'uvis_timedep_phot.ipynb' #113

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merged 6 commits into from
Jan 8, 2024
Merged

Add WFC3 notebook 'uvis_timedep_phot.ipynb' #113

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b58ac6b
updated _toc.yml and _config.yml files
dulude Oct 6, 2023
745e2ad
uvis_timedep_phot.ipynb: cleared notebook outputs.
dulude Oct 6, 2023
f7dcd5b
Merge branch 'main' into add_wfc3_uvis_time_dependent_photometry_note…
dulude Dec 18, 2023
9883b31
Refactor file path handling for improved clarity
haticekaratay Jan 5, 2024
9840bc6
Fix code style and photutils deprecation
haticekaratay Jan 5, 2024
8b3166b
Remove codestyle command
haticekaratay Jan 5, 2024
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1 change: 0 additions & 1 deletion _config.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -59,6 +59,5 @@ exclude_patterns: [notebooks/DrizzlePac/align_mosaics/align_mosaics.ipynb,
notebooks/WFC3/ir_scattered_light_manual_corrections/Correcting_for_Scattered_Light_in_IR_Exposures_by_Manually_Subtracting_Bad_Reads.ipynb,
notebooks/WFC3/photometry_examples/phot_examples.ipynb,
notebooks/WFC3/tvb_flattenramp/TVB_flattenramp_notebook.ipynb,
notebooks/WFC3/uvis_time_dependent_photometry/uvis_timedep_phot.ipynb,
notebooks/WFC3/zeropoints/zeropoints.ipynb]

2 changes: 1 addition & 1 deletion _toc.yml
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Expand Up @@ -76,5 +76,5 @@ parts:
# - file: notebooks/WFC3/photometry_examples/phot_examples.ipynb
# - file: notebooks/WFC3/tvb_flattenramp/TVB_flattenramp_notebook.ipynb
- file: notebooks/WFC3/uvis_pam_corrections/WFC3_UVIS_Pixel_Area_Map_Corrections_for_Subarrays.ipynb
# - file: notebooks/WFC3/uvis_time_dependent_photometry/uvis_timedep_phot.ipynb
- file: notebooks/WFC3/uvis_time_dependent_photometry/uvis_timedep_phot.ipynb
# - file: notebooks/WFC3/zeropoints/zeropoints.ipynb
78 changes: 40 additions & 38 deletions notebooks/WFC3/uvis_time_dependent_photometry/uvis_timedep_phot.ipynb
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Expand Up @@ -84,8 +84,6 @@
"metadata": {},
"outputs": [],
"source": [
"%matplotlib inline\n",
"\n",
"import os\n",
"import glob\n",
"import shutil\n",
Expand All @@ -96,16 +94,13 @@
"\n",
"from astropy.io import fits\n",
"from astropy.stats import sigma_clipped_stats\n",
"from astropy.coordinates import SkyCoord\n",
"from astropy import wcs\n",
"from astroquery.mast import Observations\n",
"\n",
"from drizzlepac import photeq\n",
"from drizzlepac import astrodrizzle\n",
"\n",
"from photutils import aperture_photometry, CircularAperture, CircularAnnulus\n",
"\n",
"from stwcs import updatewcs"
"from photutils.aperture import aperture_photometry, CircularAperture, CircularAnnulus\n",
"%matplotlib inline"
]
},
{
Expand All @@ -124,16 +119,17 @@
"metadata": {},
"outputs": [],
"source": [
"data_list = Observations.query_criteria(obs_id=['IBCDA4010','ICH3040F0','IDBHA6040'])\n",
" \n",
"data_list = Observations.query_criteria(obs_id=['IBCDA4010', 'ICH3040F0', 'IDBHA6040'])\n",
"\n",
"Observations.download_products(data_list['obsid'], project='CALWF3',\n",
" mrp_only=False,download_dir='./data',productSubGroupDescription=['FLC','ASN'])\n",
" mrp_only=False, download_dir='./data', productSubGroupDescription=['FLC', 'ASN'])\n",
"\n",
"science_files = glob.glob('data/mastDownload/HST/*/*fits')\n",
"\n",
"for im in science_files:\n",
" root = im.split('/')[-1]\n",
" os.rename(im,'./'+root)\n",
" root = os.path.basename(im)\n",
" new_path = os.path.join(\"./\", root)\n",
" os.rename(im, new_path)\n",
"shutil.rmtree('data/')"
]
},
Expand All @@ -151,7 +147,6 @@
"outputs": [],
"source": [
"df = pd.read_csv('GD153_F606W_public.csv')\n",
"\n",
"df"
]
},
Expand Down Expand Up @@ -230,14 +225,14 @@
" mask = annulus_masks.data\n",
" annulus_data_1d = annulus_data[mask > 0]\n",
" mean_sigclip, _, _ = sigma_clipped_stats(annulus_data_1d)\n",
" \n",
"\n",
" apers = [aperture, annulus_aperture]\n",
" phot_table = aperture_photometry(data,apers)\n",
" phot_table = aperture_photometry(data, apers)\n",
"\n",
" background = mean_sigclip * aperture.area\n",
" final_sum = phot_table['aperture_sum_0'] - background\n",
" phots.append(final_sum[0])\n",
" mjds.append(mjd) \n",
" mjds.append(mjd)\n",
" dates.append(date)"
]
},
Expand Down Expand Up @@ -279,7 +274,12 @@
"outputs": [],
"source": [
"EE_r10 = 0.91\n",
"df['STMags'] = -21.1 -2.5*np.log10(df['PHOTFLAM']) -2.5*np.log10(df['Countrate']) - 2.5 * np.log10(1./EE_r10)"
"df[\"STMags\"] = (\n",
" - 21.1\n",
" - 2.5 * np.log10(df[\"PHOTFLAM\"])\n",
" - 2.5 * np.log10(df[\"Countrate\"])\n",
" - 2.5 * np.log10(1.0 / EE_r10)\n",
")"
]
},
{
Expand Down Expand Up @@ -406,9 +406,9 @@
" annulus_data_1d = annulus_data[mask > 0]\n",
" mean_sigclip, _, _ = sigma_clipped_stats(annulus_data_1d)\n",
" background = mean_sigclip * aperture.area\n",
" \n",
"\n",
" apers = [aperture, annulus_aperture]\n",
" phot_table = aperture_photometry(data,apers)\n",
" phot_table = aperture_photometry(data, apers)\n",
"\n",
" final_sum = phot_table['aperture_sum_0'] - background\n",
" phots.append(final_sum[0])\n",
Expand Down Expand Up @@ -490,20 +490,22 @@
},
"outputs": [],
"source": [
"for asn in glob.glob('*asn.fits'):\n",
" astrodrizzle.AstroDrizzle(asn,\n",
" skymethod= 'match',\n",
" skystat='mean',\n",
" driz_sep_bits='80',\n",
" combine_type='median',\n",
" combine_nhigh=1,\n",
" driz_cr_snr= '3.5 3.0', \n",
" driz_cr_scale= '2.0 1.5',\n",
" final_bits= '80', \n",
" build=True,\n",
" clean=True,\n",
" preserve=False,\n",
" num_cores=1)"
"for asn in glob.glob(\"*asn.fits\"):\n",
" astrodrizzle.AstroDrizzle(\n",
" asn,\n",
" skymethod=\"match\",\n",
" skystat=\"mean\",\n",
" driz_sep_bits=\"80\",\n",
" combine_type=\"median\",\n",
" combine_nhigh=1,\n",
" driz_cr_snr=\"3.5 3.0\",\n",
" driz_cr_scale=\"2.0 1.5\",\n",
" final_bits=\"80\",\n",
" build=True,\n",
" clean=True,\n",
" preserve=False,\n",
" num_cores=1,\n",
" )"
]
},
{
Expand Down Expand Up @@ -537,7 +539,7 @@
"pfls = []\n",
"for i, drc in enumerate(drcs):\n",
" data = fits.getdata(drc, ext=1)\n",
" \n",
"\n",
" mjds.append(np.mean(df.query('Epoch == {}'.format(i+1))['MJD']))\n",
" pfls.append(df.query('Epoch == {}'.format(i+1))['PHOTFLAM'].values[0])\n",
"\n",
Expand All @@ -550,9 +552,9 @@
" annulus_data_1d = annulus_data[mask > 0]\n",
" mean_sigclip, _, _ = sigma_clipped_stats(annulus_data_1d)\n",
" background = mean_sigclip * aperture.area\n",
" \n",
" \n",
" apers = [aperture, annulus_aperture]\n",
" phot_table = aperture_photometry(data,apers)\n",
" phot_table = aperture_photometry(data, apers)\n",
"\n",
" final_sum = phot_table['aperture_sum_0'] - background\n",
" phots.append(final_sum[0])"
Expand Down Expand Up @@ -675,7 +677,7 @@
],
"metadata": {
"kernelspec": {
"display_name": "Python 3",
"display_name": "Python 3 (ipykernel)",
"language": "python",
"name": "python3"
},
Expand All @@ -689,7 +691,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.7.5"
"version": "3.11.6"
}
},
"nbformat": 4,
Expand Down
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