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CASCADe-filtering-1.0.1


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توضیحات

CASCADe filtering: Calibration of trAnsit Spectroscopy using CAusal Data filtering module.
ویژگی مقدار
سیستم عامل OS Independent
نام فایل CASCADe-filtering-1.0.1
نام CASCADe-filtering
نسخه کتابخانه 1.0.1
نگهدارنده []
ایمیل نگهدارنده []
نویسنده Jeroen Bouwman
ایمیل نویسنده bouwman@mpia.de
آدرس صفحه اصلی https://jbouwman.gitlab.io/CASCADe-filtering/
آدرس اینترنتی https://pypi.org/project/CASCADe-filtering/
مجوز GNU General Public License v3 (GPLv3)
[![pipeline status](https://gitlab.com/jbouwman/cascade-filtering/badges/main/pipeline.svg)](https://gitlab.com/jbouwman/cascade-filtering/commits/main) # <span style="color:#1F618D">CASCADe-filtering</span> This package is a sub package of the <span style="color:#1F618D">CASCADe </span> package, developed within the EC Horizons 2020 project <span style="color:#FF0000">Exoplanets A </span>. It contains functionality to detect and flag cosmic ray hits in spectral images, and to create cleaned and filtered spectral images, which can be used for spectral extraction. ## Installing <span style="color:#1F618D">CASCADe-filtering</span> The easiest way to install the <span style="color:#1F618D">CASCADe-filtering </span> package is to create an Anaconda environment, download the distribution from PyPi, and install the package in the designated Anaconda environment with the following commands: ```bash conda create --name cascade-filtering python=3.9 ipython conda activate cascade-filtering pip install CASCADe-filtering ``` This will install all code and scripts you need for the package to work. ## Installing the <span style="color:#1F618D">CASCADe-filtering</span> examples The <span style="color:#1F618D">CASCADe-filtering </span> package comes with several examples, demonstrating how to detect and filter cosmic hits from spectroscopic images. If the package is installed from PypPi, the example jupyter notebooks and simulated data need be downloaded from the GitLab repository. To initialize the data download one can use the following bash command in the Anaconda environment: ```bash setup_cascade-filtering.py ``` or alternatively from within the python interpreter: ```python from cascade_filtering.initialize import setup_examples setup_examples() ``` The additional downloaded data also includes examples and observational data to try out the <span style="color:#1F618D">CASCADe </span> package, which are explained below. > **_NOTE:_** The data files will be downloaded by default to a `CASCADeSTORAGE/` directory in the users home directory. If a different location is preferred, please read the section on how to set the <span style="color:#1F618D">CASCADe </span> `CASCADE_STORAGE_PATH` environment variable first. For details in the environment variables we refer to the documentation of the <span style="color:#1F618D">CASCADe </span> main package. ## Installing alternatives for the <span style="color:#1F618D">CASCADe-filtering</span> package The <span style="color:#1F618D">CASCADe-filtering </span> code can also be downloaded from GitLab directly by either using git or pip. To download and install with a single command using pip, type in a terminal the following command ```bash pip install git+git://gitlab.com/jbouwman/CASCADe-filtering.git@main ``` which will download the latest version. For other releases replace the `main` branch with one of the available releases on GitLab. Alternatively, one can first clone the repository and then install, either using the HTTPS protocol: ```bash git clone https://gitlab.com/jbouwman/CASCADe-filtering.git ``` or clone using SSH: ```bash git clone git@gitlab.com:jbouwman/CASCADe-filtering.git ``` Both commands will download a copy of the files in a folder named after the project's name. You can then navigate to the directory and start working on it locally. After accessing the root folder in a terminal, type ```bash pip install . ``` to install the package. In case one is installing <span style="color:#1F618D">CASCADe-filtering </span> directly from GitLab, and one is using Anaconda, make sure a cascade environment is created and activated before using our package. For convenience, in the <span style="color:#1F618D">CASCADe-filtering </span> main package directory an environment.yml can be found. You can use this yml file to create or update the cascade Anaconda environment. If you not already had created an cascade environment execute the following command: ```bash conda env create -f environment.yml ``` In case you already have an cascade environment, you can update the necessary packages with the following command (also use this after updating <span style="color:#1F618D">CASCADe-filtering </span> itself): ```bash conda env update -f environment.yml ``` Make sure the <span style="color:#1F618D">CASCADe-filtering </span>- package is in your path. You can either set a `PYTHONPATH` environment variable pointing to the location of the <span style="color:#1F618D">CASCADe </span>-filtering package on your system, or when using anaconda with the following command: ```bash conda develop <path_to_the_CASCADe_package_on_your_system>/CASCADe-filtering ``` ## Using <span style="color:#1F618D">CASCADe-filtering </span> The <span style="color:#1F618D">CASCADe-filtering </span> distribution comes with several working examples and test data sets which can be found in the examples directory of the <span style="color:#1F618D">CASCADe-filtering </span> distribution on GitLab, or have been installed locally with the commands outlined above. The example jupyter notebooks explain and demonstrate the basic usage of the filtering modules, and use simulated JWST/MIRI low resolution spectroscopic data as an example how to identify and remove cosmic hits. To run the examples make sure that the conda cascade-filtering environment can be found by the jupyter server. This can be achieved with the following command: ```bash python -m ipykernel install --user --name=cascade-filtering ``` after which the notebooks can be viewed and excecuted with jupyter which can be started with. ```bash jupyter notebooks ``` ## Documentation The full documentation can be found online at: ``` https://jbouwman.gitlab.io/CASCADe-filtering/ ``` Alternatively, the documentation can be found in the `docs` directory of the <span style="color:#1F618D">CASCADe-filtering </span> GitLab repository. After cloning the git repository, the full documentation can be generated by executing in the in the `docs` directory the following commands: ```bash make html make latexpdf ``` The generated HTML and PDF files will be located in the `build/html` and `build/latex` sub-directories of the main documentation directory, respectively. Documentation on the <span style="color:#1F618D">CASCADe </span> main package can be found at: ``` https://jbouwman.gitlab.io/CASCADe/ ``` ## Acknowledgments The <span style="color:#1F618D">CASCADe-filtering </span> code was developed by Jeroen Bouwman, with contributions from the following collaborators: Juergen Schreiber (MPIA) This work was supported by the European Unions Horizon 2020 Research and Innovation Programme, under Grant Agreement N 776403. ## Publications https://ui.adsabs.harvard.edu/abs/2021AJ....161..284M/abstract https://ui.adsabs.harvard.edu/abs/2021A%26A...646A.168C/abstract https://ui.adsabs.harvard.edu/abs/2020ASPC..527..179L/abstract https://exoplanet-talks.org/talk/271


نیازمندی

مقدار نام
- astropy
- scipy
==1.21.5 numpy
- configparser
- jupyter
- matplotlib
- tqdm
- seaborn
- pytest
>=0.19 scikit-image
- sphinx
- alabaster
- pyfiglet
- six
- colorama
- termcolor
- cython
==0.55.1 numba
- ray[default]


زبان مورد نیاز

مقدار نام
>=3.7, <3.10 Python


نحوه نصب


نصب پکیج whl CASCADe-filtering-1.0.1:

    pip install CASCADe-filtering-1.0.1.whl


نصب پکیج tar.gz CASCADe-filtering-1.0.1:

    pip install CASCADe-filtering-1.0.1.tar.gz