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Updated tutorials, print additional output
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@tomasstolker
tomasstolker committed Feb 19, 2024
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88 changes: 21 additions & 67 deletions docs/tutorials/companion_data.ipynb
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"\n",
"Working folder: /Users/tomasstolker/applications/species/docs/tutorials\n",
"Creating species_config.ini... [DONE]\n",
"\n",
"Configuration settings:\n",
" - Database: /Users/tomasstolker/applications/species/docs/tutorials/species_database.hdf5\n",
" - Data folder: /Users/tomasstolker/applications/species/docs/tutorials/data\n",
" - Interpolation method: linear\n",
" - Magnitude of Vega: 0.03\n",
"Creating species_database.hdf5... [DONE]\n",
"Creating data folder... [DONE]\n"
"Creating data folder... [DONE]\n",
"\n",
"Multiprocessing: mpi4py installed\n",
"Process number 1 out of 1...\n"
]
},
{
"data": {
"text/plain": [
"<species.core.species_init.SpeciesInit at 0x145f4ef10>"
"<species.core.species_init.SpeciesInit at 0x10f0218d0>"
]
},
"execution_count": 2,
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"id": "39f50cac",
"metadata": {},
"outputs": [
{
"name": "stderr",
"output_type": "stream",
"text": [
"Downloading data from 'https://archive.stsci.edu/hlsps/reference-atlases/cdbs/current_calspec/alpha_lyr_stis_011.fits' to file '/Users/tomasstolker/applications/species/docs/tutorials/data/alpha_lyr_stis_011.fits'.\n",
"100%|████████████████████████████████████████| 288k/288k [00:00<00:00, 181MB/s]\n"
]
},
{
"name": "stdout",
"output_type": "stream",
"text": [
"Adding Vega spectrum... [DONE]\n",
"Reference: Bohlin et al. 2014, PASP, 126\n",
"URL: https://ui.adsabs.harvard.edu/abs/2014PASP..126..711B/abstract\n",
"Adding object: beta Pic b [DONE]\n"
"Adding companion: ['beta Pic b', 'beta Pic c', 'HIP 65426 b', '51 Eri b', 'HR 8799 b', 'HR 8799 c', 'HR 8799 d', 'HR 8799 e', 'HD 95086 b', 'PDS 70 b', 'PDS 70 c', '2M 1207 B', 'AB Pic B', 'HD 206893 B', 'RZ Psc B', 'GQ Lup B', 'PZ Tel B', 'kappa And b', 'HD 1160 B', 'ROXs 12 B', 'ROXs 42 Bb', 'GJ 504 b', 'GJ 758 B', 'GU Psc b', '2M0103 ABb', '1RXS 1609 B', 'GSC 06214 B', 'HD 72946 B', 'HIP 64892 B', 'HD 13724 B', 'YSES 1 b', 'YSES 1 c', 'YSES 2 b', 'HD 142527 B', 'CS Cha B', 'CT Cha B', 'SR 12 C', 'DH Tau B', 'HD 4747 B', 'HR 3549 B', 'CHXR 73 B', 'HD 19467 B', 'b Cen (AB)b', 'VHS 1256 B']\n"
]
},
{
"name": "stderr",
"output_type": "stream",
"text": [
"/Users/tomasstolker/applications/species/species/data/database.py:1296: UserWarning: Found 33 fluxes with NaN in the data of GPI_YJHK. Removing the spectral fluxes that contain a NaN.\n",
" warnings.warn(\n"
"Downloading data from 'https://archive.stsci.edu/hlsps/reference-atlases/cdbs/current_calspec/alpha_lyr_stis_011.fits' to file '/Users/tomasstolker/applications/species/docs/tutorials/data/alpha_lyr_stis_011.fits'.\n",
"100%|████████████████████████████████████████| 288k/288k [00:00<00:00, 149MB/s]\n"
]
},
{
"name": "stdout",
"output_type": "stream",
"text": [
"Adding object: beta Pic c [DONE]\n",
"Adding object: HIP 65426 b [DONE]\n",
"Adding object: 51 Eri b [DONE]\n"
"Adding spectrum: VegaReference: Bohlin et al. 2014, PASP, 126\n",
"URL: https://ui.adsabs.harvard.edu/abs/2014PASP..126..711B/abstract\n"
]
},
{
"name": "stderr",
"output_type": "stream",
"text": [
"/Users/tomasstolker/applications/species/species/data/database.py:1356: UserWarning: Found 33 fluxes with NaN in the data of GPI_YJHK. Removing the spectral fluxes that contain a NaN.\n",
" warnings.warn(\n",
"/Users/tomasstolker/applications/species/species/data/filter_data/filter_data.py:227: UserWarning: The minimum transmission value of Subaru/CIAO.z is smaller than zero (-1.80e-03). Wavelengths with negative transmission values will be removed.\n",
" warnings.warn(\n"
]
},
{
"name": "stdout",
"output_type": "stream",
"text": [
"Adding object: HR 8799 b [DONE]\n",
"Adding object: HR 8799 c [DONE]\n",
"Adding object: HR 8799 d [DONE]\n",
"Adding object: HR 8799 e [DONE]\n",
"Adding object: HD 95086 b [DONE]\n",
"Adding object: PDS 70 b [DONE]\n",
"Adding object: PDS 70 c [DONE]\n",
"Adding object: 2M 1207 B [DONE]\n",
"Adding object: AB Pic B [DONE]\n",
"Adding object: HD 206893 B [DONE]\n",
"Adding object: RZ Psc B [DONE]\n",
"Adding object: GQ Lup B [DONE]\n",
"Adding object: PZ Tel B [DONE]\n",
"Adding object: kappa And b [DONE]\n",
"Adding object: HD 1160 B [DONE]\n",
"Adding object: ROXs 12 B [DONE]\n",
"Adding object: ROXs 42 Bb [DONE]\n",
"Adding object: GJ 504 b [DONE]\n",
"Adding object: GJ 758 B [DONE]\n",
"Adding object: GU Psc b [DONE]\n",
"Adding object: 2M0103 ABb [DONE]\n",
"Adding object: 1RXS 1609 B [DONE]\n",
"Adding object: GSC 06214 B [DONE]\n",
"Adding object: HD 72946 B [DONE]\n",
"Adding object: HIP 64892 B [DONE]\n",
"Adding object: HD 13724 B [DONE]\n",
"Adding object: YSES 1 b [DONE]\n",
"Adding object: YSES 1 c [DONE]\n",
"Adding object: YSES 2 b [DONE]\n",
"Adding object: HD 142527 B [DONE]\n",
"Adding object: CS Cha B [DONE]\n",
"Adding object: CT Cha B [DONE]\n",
"Adding object: SR 12 C [DONE]\n",
"Adding object: DH Tau B [DONE]\n",
"Adding object: HD 4747 B [DONE]\n",
"Adding object: HR 3549 B [DONE]\n",
"Adding object: CHXR 73 B [DONE]\n",
"Adding object: HD 19467 B [DONE]\n",
"Adding object: b Cen (AB)b [DONE]\n",
"Adding object: VHS 1256 B [DONE]\n"
]
}
],
"source": [
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"name": "stdout",
"output_type": "stream",
"text": [
"Getting object: beta Pic b... [DONE]\n"
"\n",
"----------\n",
"Get object\n",
"----------\n",
"\n",
"Object name: beta Pic b\n",
"Include photometry: True\n",
"Include spectra: False\n"
]
}
],
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