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kevin218 / Eureka

Eureka! is a data reduction and analysis pipeline intended for time-series observations with JWST.
https://eurekadocs.readthedocs.io/
MIT License
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Only 2 Data points on Stage 6 #488

Closed Parallax47 closed 1 year ago

Parallax47 commented 1 year ago

Instrument

Light curve fitting (Stages 4-6)

What happened?

Hello, I am trying to plot the spectrum from the WASP-39b ERS 1366 and am following this paper. To save on time/processing while figuring this out, I am only using Segment 2 of the observation, which seems to have about half of the transit. I tried my best following the directions listed in the Eureka section of the paper, however in Stage 6, I always only get 2 points per plot, with large error bars. I am wondering if there is a parameter I missed or something I need to do to get a "higher resolution" of the spectra plot. Below is my Stage 6 ecf parameters, and one example of the plots I'm getting.

Any help would be appreciated!

s6.txt

fig6101_rp^2

Error traceback output

No response

What operating system are you using?

Linux Ubuntu 22.04 LTS

What version of Python are you running?

Python 3.9.7

What Python packages do you have installed?

Name Version Build Channel

_libgcc_mutex 0.1 main
_openmp_mutex 5.1 1_gnu
alabaster 0.7.12 pypi_0 pypi anyio 3.6.2 pyhd8ed1ab_0 conda-forge argon2-cffi 21.3.0 pyhd8ed1ab_0 conda-forge argon2-cffi-bindings 21.2.0 py39hb9d737c_2 conda-forge asdf 2.13.0 pyhd8ed1ab_0 conda-forge asdf-astropy 0.2.2 pypi_0 pypi asdf-coordinates-schemas 0.1.0 pypi_0 pypi asdf-standard 1.0.3 pyhd8ed1ab_0 conda-forge asdf-transform-schemas 0.3.0 pyhd8ed1ab_0 conda-forge asdf-wcs-schemas 0.1.1 pypi_0 pypi asteval 0.9.27 pypi_0 pypi astraeus 0.3 pypi_0 pypi astropy 5.1.1 pypi_0 pypi astropy-healpix 0.7 pypi_0 pypi astroquery 0.4.6 pypi_0 pypi astroscrappy 1.1.0 pypi_0 pypi asttokens 2.1.0 pypi_0 pypi attrs 22.1.0 pyh71513ae_1 conda-forge babel 2.10.3 pyhd8ed1ab_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge batman-package 2.4.9 pypi_0 pypi bayesicfitting 3.0.1 pypi_0 pypi beautifulsoup4 4.11.1 pyha770c72_0 conda-forge bleach 5.0.1 pyhd8ed1ab_0 conda-forge bokeh 2.4.3 pypi_0 pypi bottleneck 1.3.5 pypi_0 pypi brotlipy 0.7.0 py39hb9d737c_1004 conda-forge ca-certificates 2022.9.24 ha878542_0 conda-forge ccdproc 2.3.1 pypi_0 pypi celerite 0.4.2 pypi_0 pypi certifi 2022.9.24 pyhd8ed1ab_0 conda-forge cffi 1.15.1 py39h74dc2b5_0
cftime 1.6.2 pypi_0 pypi charset-normalizer 2.1.1 pyhd8ed1ab_0 conda-forge cloudpickle 2.2.0 pypi_0 pypi contourpy 1.0.5 pypi_0 pypi corner 2.2.1 pypi_0 pypi crds 11.16.15 pypi_0 pypi cryptography 38.0.1 pypi_0 pypi cycler 0.11.0 pypi_0 pypi cython 0.29.32 pypi_0 pypi dask 2022.6.0 pypi_0 pypi decorator 5.1.1 pyhd8ed1ab_0 conda-forge defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge docutils 0.19 pypi_0 pypi drizzle 1.13.6 pypi_0 pypi dynesty 2.0.1 pypi_0 pypi emcee 3.1.3 pypi_0 pypi entrypoints 0.4 pyhd8ed1ab_0 conda-forge eureka 0.5 pypi_0 pypi exceptiongroup 1.0.0 pypi_0 pypi executing 1.2.0 pypi_0 pypi exotic-ld 2.0.0 pypi_0 pypi filelock 3.8.0 pypi_0 pypi flit-core 3.7.1 pyhd8ed1ab_0 conda-forge fonttools 4.38.0 pypi_0 pypi fsspec 2022.10.0 pypi_0 pypi future 0.18.2 pypi_0 pypi george 0.4.0 pypi_0 pypi gwcs 0.18.2 pypi_0 pypi h5netcdf 1.0.2 pypi_0 pypi h5py 3.1.0 pypi_0 pypi html5lib 1.1 pypi_0 pypi idna 3.4 pyhd8ed1ab_0 conda-forge imageio 2.22.2 pypi_0 pypi imagesize 1.4.1 pypi_0 pypi importlib-metadata 5.0.0 pyha770c72_1 conda-forge importlib-resources 5.10.0 pyhd8ed1ab_0 conda-forge importlib_resources 5.10.0 pyhd8ed1ab_0 conda-forge iniconfig 1.1.1 pypi_0 pypi ipykernel 5.5.5 py39hef51801_0 conda-forge ipython 8.5.0 pyh41d4057_1 conda-forge ipython_genutils 0.2.0 py_1 conda-forge jaraco-classes 3.2.3 pypi_0 pypi jedi 0.18.1 pyhd8ed1ab_2 conda-forge jeepney 0.8.0 pypi_0 pypi jinja2 3.1.2 pyhd8ed1ab_1 conda-forge jmespath 1.0.1 pyhd8ed1ab_0 conda-forge json5 0.9.5 pyh9f0ad1d_0 conda-forge jsonschema 4.9.1 pyhd8ed1ab_0 conda-forge jupyter_client 7.0.6 pyhd8ed1ab_0 conda-forge jupyter_core 4.11.1 py39hf3d152e_1 conda-forge jupyter_server 1.21.0 pyhd8ed1ab_0 conda-forge jupyterlab 3.5.0 pyhd8ed1ab_0 conda-forge jupyterlab_pygments 0.2.2 pyhd8ed1ab_0 conda-forge jupyterlab_server 2.16.1 pyhd8ed1ab_0 conda-forge jwst 1.6.0 pypi_0 pypi keyring 23.9.3 pypi_0 pypi kiwisolver 1.4.4 pypi_0 pypi ld_impl_linux-64 2.38 h1181459_1
libblas 3.9.0 15_linux64_openblas conda-forge libcblas 3.9.0 15_linux64_openblas conda-forge libffi 3.3 he6710b0_2
libgcc-ng 11.2.0 h1234567_1
libgfortran-ng 12.2.0 h69a702a_19 conda-forge libgfortran5 12.2.0 h337968e_19 conda-forge libgomp 11.2.0 h1234567_1
liblapack 3.9.0 15_linux64_openblas conda-forge libopenblas 0.3.20 pthreads_h78a6416_0 conda-forge libsodium 1.0.18 h36c2ea0_1 conda-forge libstdcxx-ng 11.2.0 h1234567_1
lmfit 1.0.3 pypi_0 pypi locket 1.0.0 pypi_0 pypi lxml 4.9.1 pypi_0 pypi markupsafe 2.1.1 py39hb9d737c_1 conda-forge matplotlib 3.6.1 pypi_0 pypi matplotlib-inline 0.1.6 pyhd8ed1ab_0 conda-forge mistune 2.0.4 pyhd8ed1ab_0 conda-forge more-itertools 9.0.0 pypi_0 pypi nbclassic 0.4.5 pyhd8ed1ab_0 conda-forge nbclient 0.7.0 pyhd8ed1ab_0 conda-forge nbconvert 7.2.3 pyhd8ed1ab_0 conda-forge nbconvert-core 7.2.3 pyhd8ed1ab_0 conda-forge nbconvert-pandoc 7.2.3 pyhd8ed1ab_0 conda-forge nbformat 5.7.0 pyhd8ed1ab_0 conda-forge ncurses 6.3 h5eee18b_3
nest-asyncio 1.5.6 pyhd8ed1ab_0 conda-forge netcdf4 1.6.1 pypi_0 pypi networkx 2.8.7 pypi_0 pypi notebook 6.5.1 pyha770c72_0 conda-forge notebook-shim 0.2.0 pyhd8ed1ab_0 conda-forge numpy 1.23.4 pypi_0 pypi numpydoc 1.5.0 pypi_0 pypi opencv-python 4.6.0.66 pypi_0 pypi openssl 1.1.1l h7f98852_0 conda-forge packaging 21.3 pyhd8ed1ab_0 conda-forge pandas 1.5.1 pypi_0 pypi pandoc 2.19.2 ha770c72_0 conda-forge pandocfilters 1.5.0 pyhd8ed1ab_0 conda-forge parsley 1.3 pypi_0 pypi parso 0.8.3 pyhd8ed1ab_0 conda-forge partd 1.3.0 pypi_0 pypi pexpect 4.8.0 pyh9f0ad1d_2 conda-forge photutils 1.5.0 pypi_0 pypi pickleshare 0.7.5 py_1003 conda-forge pillow 9.3.0 pypi_0 pypi pip 22.2.2 py39h06a4308_0
pkgutil-resolve-name 1.3.10 pyhd8ed1ab_0 conda-forge pluggy 1.0.0 pypi_0 pypi poppy 1.0.3 pypi_0 pypi prometheus_client 0.15.0 pyhd8ed1ab_0 conda-forge prompt-toolkit 3.0.31 pyha770c72_0 conda-forge psutil 5.9.3 pypi_0 pypi ptyprocess 0.7.0 pyhd3deb0d_0 conda-forge pure_eval 0.2.2 pyhd8ed1ab_0 conda-forge pycparser 2.21 pyhd8ed1ab_0 conda-forge pyerfa 2.0.0.1 pypi_0 pypi pygments 2.13.0 pyhd8ed1ab_0 conda-forge pyopenssl 22.0.0 pyhd8ed1ab_1 conda-forge pyparsing 3.0.9 pyhd8ed1ab_0 conda-forge pyrsistent 0.18.1 py39hb9d737c_1 conda-forge pysocks 1.7.1 pyha2e5f31_6 conda-forge pysynphot 2.0.0 pypi_0 pypi pytest 7.2.0 pypi_0 pypi python 3.9.7 h12debd9_1
python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python-fastjsonschema 2.16.2 pyhd8ed1ab_0 conda-forge python_abi 3.9 2_cp39 conda-forge pytz 2022.5 pyhd8ed1ab_0 conda-forge pyvo 1.4 pypi_0 pypi pywavelets 1.4.1 pypi_0 pypi pyyaml 6.0 py39hb9d737c_4 conda-forge pyzmq 19.0.2 py39hb69f2a1_2 conda-forge readline 8.2 h5eee18b_0
reproject 0.9 pypi_0 pypi requests 2.28.1 pyhd8ed1ab_1 conda-forge scikit-image 0.19.3 pypi_0 pypi scipy 1.9.3 pypi_0 pypi secretstorage 3.3.3 pypi_0 pypi semantic_version 2.10.0 pyhd8ed1ab_0 conda-forge send2trash 1.8.0 pyhd8ed1ab_0 conda-forge setuptools 65.4.0 py39h06a4308_0
setuptools-scm 7.0.5 pypi_0 pypi six 1.16.0 pyh6c4a22f_0 conda-forge sniffio 1.3.0 pyhd8ed1ab_0 conda-forge snowballstemmer 2.2.0 pypi_0 pypi soupsieve 2.3.2.post1 pyhd8ed1ab_0 conda-forge spherical-geometry 1.2.23 pypi_0 pypi sphinx 5.3.0 pypi_0 pypi sphinxcontrib-applehelp 1.0.2 pypi_0 pypi sphinxcontrib-devhelp 1.0.2 pypi_0 pypi sphinxcontrib-htmlhelp 2.0.0 pypi_0 pypi sphinxcontrib-jsmath 1.0.1 pypi_0 pypi sphinxcontrib-qthelp 1.0.3 pypi_0 pypi sphinxcontrib-serializinghtml 1.1.5 pypi_0 pypi sqlite 3.39.3 h5082296_0
stack-data 0.6.0 pypi_0 pypi stack_data 0.5.1 pyhd8ed1ab_0 conda-forge stcal 1.2.1 pypi_0 pypi stdatamodels 0.4.3 pypi_0 pypi stpipe 0.4.2 pypi_0 pypi stsci-image 2.3.5 pypi_0 pypi stsci-imagestats 1.6.3 pypi_0 pypi stsci-stimage 0.2.5 pypi_0 pypi svo-filters 0.4.4 pypi_0 pypi terminado 0.17.0 pyh41d4057_0 conda-forge tifffile 2022.10.10 pypi_0 pypi tinycss2 1.2.1 pyhd8ed1ab_0 conda-forge tk 8.6.12 h1ccaba5_0
tomli 2.0.1 pyhd8ed1ab_0 conda-forge toolz 0.12.0 pypi_0 pypi tornado 6.2 pypi_0 pypi tqdm 4.64.1 pypi_0 pypi traitlets 5.5.0 pyhd8ed1ab_0 conda-forge tweakwcs 0.8.0 pypi_0 pypi typing_extensions 4.4.0 pyha770c72_0 conda-forge tzdata 2022e h04d1e81_0
uncertainties 3.1.7 pypi_0 pypi urllib3 1.26.12 pypi_0 pypi wcwidth 0.2.5 pyh9f0ad1d_2 conda-forge webencodings 0.5.1 pypi_0 pypi websocket-client 1.4.1 pyhd8ed1ab_0 conda-forge wheel 0.37.1 pyhd3eb1b0_0
wiimatch 0.3.1 pypi_0 pypi xarray 2022.10.0 pypi_0 pypi xz 5.2.6 h5eee18b_0
yaml 0.2.5 h7f98852_2 conda-forge zeromq 4.3.4 h9c3ff4c_1 conda-forge zipp 3.10.0 pyhd8ed1ab_0 conda-forge zlib 1.2.13 h5eee18b_0

Code of Conduct

kevin218 commented 1 year ago

Yes, in the Stage 4 ECF you can change the number of spectroscopic channels.

On Sun, Nov 27, 2022, 11:21 PM Parallax47 @.***> wrote:

Instrument

Light curve fitting (Stages 4-6) What happened?

Hello, I am trying to plot the spectrum from the WASP-39b ERS 1366 and am following this paper. https://arxiv.org/pdf/2208.11692.pdf To save on time/processing while figuring this out, I am only using Segment 2 of the observation, which seems to have about half of the transit. I tried my best following the directions listed in the Eureka section of the paper, however in Stage 6, I always only get 2 points per plot, with large error bars. I am wondering if there is a parameter I missed or something I need to do to get a "higher resolution" of the spectra plot. Below is one example of the plots I'm getting.

Any help would be appreciated! [image: fig6101_rp^2] https://user-images.githubusercontent.com/22198812/204192848-0c5f7b2c-a036-41f1-b80a-d8c3fba50039.png Error traceback output

No response What operating system are you using?

Linux Ubuntu 22.04 LTS What version of Python are you running?

Python 3.9.7 What Python packages do you have installed? Name Version Build Channel

_libgcc_mutex 0.1 main _openmp_mutex 5.1 1_gnu alabaster 0.7.12 pypi_0 pypi anyio 3.6.2 pyhd8ed1ab_0 conda-forge argon2-cffi 21.3.0 pyhd8ed1ab_0 conda-forge argon2-cffi-bindings 21.2.0 py39hb9d737c_2 conda-forge asdf 2.13.0 pyhd8ed1ab_0 conda-forge asdf-astropy 0.2.2 pypi_0 pypi asdf-coordinates-schemas 0.1.0 pypi_0 pypi asdf-standard 1.0.3 pyhd8ed1ab_0 conda-forge asdf-transform-schemas 0.3.0 pyhd8ed1ab_0 conda-forge asdf-wcs-schemas 0.1.1 pypi_0 pypi asteval 0.9.27 pypi_0 pypi astraeus 0.3 pypi_0 pypi astropy 5.1.1 pypi_0 pypi astropy-healpix 0.7 pypi_0 pypi astroquery 0.4.6 pypi_0 pypi astroscrappy 1.1.0 pypi_0 pypi asttokens 2.1.0 pypi_0 pypi attrs 22.1.0 pyh71513ae_1 conda-forge babel 2.10.3 pyhd8ed1ab_0 conda-forge backcall 0.2.0 pyh9f0ad1d_0 conda-forge backports 1.0 py_2 conda-forge backports.functools_lru_cache 1.6.4 pyhd8ed1ab_0 conda-forge batman-package 2.4.9 pypi_0 pypi bayesicfitting 3.0.1 pypi_0 pypi beautifulsoup4 4.11.1 pyha770c72_0 conda-forge bleach 5.0.1 pyhd8ed1ab_0 conda-forge bokeh 2.4.3 pypi_0 pypi bottleneck 1.3.5 pypi_0 pypi brotlipy 0.7.0 py39hb9d737c_1004 conda-forge ca-certificates 2022.9.24 ha878542_0 conda-forge ccdproc 2.3.1 pypi_0 pypi celerite 0.4.2 pypi_0 pypi certifi 2022.9.24 pyhd8ed1ab_0 conda-forge cffi 1.15.1 py39h74dc2b5_0 cftime 1.6.2 pypi_0 pypi charset-normalizer 2.1.1 pyhd8ed1ab_0 conda-forge cloudpickle 2.2.0 pypi_0 pypi contourpy 1.0.5 pypi_0 pypi corner 2.2.1 pypi_0 pypi crds 11.16.15 pypi_0 pypi cryptography 38.0.1 pypi_0 pypi cycler 0.11.0 pypi_0 pypi cython 0.29.32 pypi_0 pypi dask 2022.6.0 pypi_0 pypi decorator 5.1.1 pyhd8ed1ab_0 conda-forge defusedxml 0.7.1 pyhd8ed1ab_0 conda-forge docutils 0.19 pypi_0 pypi drizzle 1.13.6 pypi_0 pypi dynesty 2.0.1 pypi_0 pypi emcee 3.1.3 pypi_0 pypi entrypoints 0.4 pyhd8ed1ab_0 conda-forge eureka 0.5 pypi_0 pypi exceptiongroup 1.0.0 pypi_0 pypi executing 1.2.0 pypi_0 pypi exotic-ld 2.0.0 pypi_0 pypi filelock 3.8.0 pypi_0 pypi flit-core 3.7.1 pyhd8ed1ab_0 conda-forge fonttools 4.38.0 pypi_0 pypi fsspec 2022.10.0 pypi_0 pypi future 0.18.2 pypi_0 pypi george 0.4.0 pypi_0 pypi gwcs 0.18.2 pypi_0 pypi h5netcdf 1.0.2 pypi_0 pypi h5py 3.1.0 pypi_0 pypi html5lib 1.1 pypi_0 pypi idna 3.4 pyhd8ed1ab_0 conda-forge imageio 2.22.2 pypi_0 pypi imagesize 1.4.1 pypi_0 pypi importlib-metadata 5.0.0 pyha770c72_1 conda-forge importlib-resources 5.10.0 pyhd8ed1ab_0 conda-forge importlib_resources 5.10.0 pyhd8ed1ab_0 conda-forge iniconfig 1.1.1 pypi_0 pypi ipykernel 5.5.5 py39hef51801_0 conda-forge ipython 8.5.0 pyh41d4057_1 conda-forge ipython_genutils 0.2.0 py_1 conda-forge jaraco-classes 3.2.3 pypi_0 pypi jedi 0.18.1 pyhd8ed1ab_2 conda-forge jeepney 0.8.0 pypi_0 pypi jinja2 3.1.2 pyhd8ed1ab_1 conda-forge jmespath 1.0.1 pyhd8ed1ab_0 conda-forge json5 0.9.5 pyh9f0ad1d_0 conda-forge jsonschema 4.9.1 pyhd8ed1ab_0 conda-forge jupyter_client 7.0.6 pyhd8ed1ab_0 conda-forge jupyter_core 4.11.1 py39hf3d152e_1 conda-forge jupyter_server 1.21.0 pyhd8ed1ab_0 conda-forge jupyterlab 3.5.0 pyhd8ed1ab_0 conda-forge jupyterlab_pygments 0.2.2 pyhd8ed1ab_0 conda-forge jupyterlab_server 2.16.1 pyhd8ed1ab_0 conda-forge jwst 1.6.0 pypi_0 pypi keyring 23.9.3 pypi_0 pypi kiwisolver 1.4.4 pypi_0 pypi ld_impl_linux-64 2.38 h1181459_1 libblas 3.9.0 15_linux64_openblas conda-forge libcblas 3.9.0 15_linux64_openblas conda-forge libffi 3.3 he6710b0_2 libgcc-ng 11.2.0 h1234567_1 libgfortran-ng 12.2.0 h69a702a_19 conda-forge libgfortran5 12.2.0 h337968e_19 conda-forge libgomp 11.2.0 h1234567_1 liblapack 3.9.0 15_linux64_openblas conda-forge libopenblas 0.3.20 pthreads_h78a6416_0 conda-forge libsodium 1.0.18 h36c2ea0_1 conda-forge libstdcxx-ng 11.2.0 h1234567_1 lmfit 1.0.3 pypi_0 pypi locket 1.0.0 pypi_0 pypi lxml 4.9.1 pypi_0 pypi markupsafe 2.1.1 py39hb9d737c_1 conda-forge matplotlib 3.6.1 pypi_0 pypi matplotlib-inline 0.1.6 pyhd8ed1ab_0 conda-forge mistune 2.0.4 pyhd8ed1ab_0 conda-forge more-itertools 9.0.0 pypi_0 pypi nbclassic 0.4.5 pyhd8ed1ab_0 conda-forge nbclient 0.7.0 pyhd8ed1ab_0 conda-forge nbconvert 7.2.3 pyhd8ed1ab_0 conda-forge nbconvert-core 7.2.3 pyhd8ed1ab_0 conda-forge nbconvert-pandoc 7.2.3 pyhd8ed1ab_0 conda-forge nbformat 5.7.0 pyhd8ed1ab_0 conda-forge ncurses 6.3 h5eee18b_3 nest-asyncio 1.5.6 pyhd8ed1ab_0 conda-forge netcdf4 1.6.1 pypi_0 pypi networkx 2.8.7 pypi_0 pypi notebook 6.5.1 pyha770c72_0 conda-forge notebook-shim 0.2.0 pyhd8ed1ab_0 conda-forge numpy 1.23.4 pypi_0 pypi numpydoc 1.5.0 pypi_0 pypi opencv-python 4.6.0.66 pypi_0 pypi openssl 1.1.1l h7f98852_0 conda-forge packaging 21.3 pyhd8ed1ab_0 conda-forge pandas 1.5.1 pypi_0 pypi pandoc 2.19.2 ha770c72_0 conda-forge pandocfilters 1.5.0 pyhd8ed1ab_0 conda-forge parsley 1.3 pypi_0 pypi parso 0.8.3 pyhd8ed1ab_0 conda-forge partd 1.3.0 pypi_0 pypi pexpect 4.8.0 pyh9f0ad1d_2 conda-forge photutils 1.5.0 pypi_0 pypi pickleshare 0.7.5 py_1003 conda-forge pillow 9.3.0 pypi_0 pypi pip 22.2.2 py39h06a4308_0 pkgutil-resolve-name 1.3.10 pyhd8ed1ab_0 conda-forge pluggy 1.0.0 pypi_0 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Parallax47 commented 1 year ago

Awesome thank you so much! That seems to have done it. I've posted my results below, and they are definitely in the ballpark of what I was hoping to get. My spectrum seems a little off but that is probably due to some other parameters. I'll keep reading! Thanks again!

fig6301_rp^2 fig6101_scatter_mult