ankflag 3.0.0__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- ankflag-3.0.0/LICENSE +31 -0
- ankflag-3.0.0/PKG-INFO +167 -0
- ankflag-3.0.0/README.md +86 -0
- ankflag-3.0.0/ankflag/__init__.py +0 -0
- ankflag-3.0.0/ankflag/data/__init__.py +0 -0
- ankflag-3.0.0/ankflag/data/ank.yml +84 -0
- ankflag-3.0.0/ankflag/scripts/__init__.py +0 -0
- ankflag-3.0.0/ankflag/scripts/runank.py +337 -0
- ankflag-3.0.0/ankflag/utils/__init__.py +0 -0
- ankflag-3.0.0/ankflag/utils/ankcopy.py +183 -0
- ankflag-3.0.0/ankflag/utils/ankdata.py +112 -0
- ankflag-3.0.0/ankflag/utils/convertfits.py +384 -0
- ankflag-3.0.0/ankflag/utils/inputs.py +109 -0
- ankflag-3.0.0/ankflag/utils/plottingfns.py +127 -0
- ankflag-3.0.0/ankflag/utils/print_badant.py +82 -0
- ankflag-3.0.0/ankflag/utils/showank.py +71 -0
- ankflag-3.0.0/ankflag/utils/udocker_utils.py +325 -0
- ankflag-3.0.0/ankflag.egg-info/PKG-INFO +167 -0
- ankflag-3.0.0/ankflag.egg-info/SOURCES.txt +23 -0
- ankflag-3.0.0/ankflag.egg-info/dependency_links.txt +1 -0
- ankflag-3.0.0/ankflag.egg-info/entry_points.txt +2 -0
- ankflag-3.0.0/ankflag.egg-info/requires.txt +68 -0
- ankflag-3.0.0/ankflag.egg-info/top_level.txt +1 -0
- ankflag-3.0.0/pyproject.toml +112 -0
- ankflag-3.0.0/setup.cfg +4 -0
ankflag-3.0.0/LICENSE
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MIT License with Citation Requirement
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Copyright (c) 2025 Devojyoti Kansabanik
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Permission is hereby granted, free of charge, to any person obtaining a copy
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of this software and associated documentation files (the "Software"), to deal
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in the Software without restriction, including without limitation the rights
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to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
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copies of the Software, and to permit persons to whom the Software is
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furnished to do so, subject to the following conditions:
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1. The above copyright notice and this permission notice shall be included
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in all copies or substantial portions of the Software.
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2. Any publications, software, or works that make use of this Software,
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in whole or in part, must include proper academic citation to the
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following reference(s):
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Kansabanik, D. et al., "MeerSOLAR", 10.5281/zenodo.16040508.
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3. A copy of the CITATION.cff file or equivalent citation information
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must be distributed with any copy of the Software or derived works.
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THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
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IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
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FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
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AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
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LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
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OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
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THE SOFTWARE.
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ankflag-3.0.0/PKG-INFO
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Metadata-Version: 2.4
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Name: ankflag
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Version: 3.0.0
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Summary: A package to perform RFI flagging of radio interferometric data
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Author-email: Apurba Bera <apurba7777@gmail.com>, Devojyoti Kansabanik <devojyoti96@gmail.com>
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License-Expression: MIT
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Project-URL: Homepage, https://github.com/devojyoti96/aNKflag
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Classifier: Programming Language :: Python :: 3
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Classifier: Operating System :: OS Independent
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Requires-Python: >=3
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Description-Content-Type: text/markdown
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License-File: LICENSE
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Requires-Dist: aiohappyeyeballs==2.6.2
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Requires-Dist: frozenlist==1.8.0
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Requires-Dist: idna==3.17
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Requires-Dist: kiwisolver==1.5.0
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Requires-Dist: matplotlib==3.5.2
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Requires-Dist: matplotlib-inline==0.1.7
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Requires-Dist: multidict==6.7.1
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Requires-Dist: numpy==1.26.4
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Requires-Dist: packaging==26.0
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Requires-Dist: parso==0.8.7
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Requires-Dist: python-dateutil==2.9.0.post0
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Requires-Dist: PyYAML==6.0.1
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Requires-Dist: requests==2.34.2
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Requires-Dist: six==1.17.0
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Requires-Dist: stack-data==0.6.3
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Requires-Dist: tqdm==4.67.3
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Requires-Dist: traitlets==5.15.0
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Requires-Dist: typing_extensions==4.15.0
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Requires-Dist: udocker==1.3.17
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Requires-Dist: urllib3==2.7.0
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Requires-Dist: yarl==1.24.2
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Provides-Extra: dev
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Requires-Dist: sphinx>=7.2.6; extra == "dev"
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Requires-Dist: furo>=2024.5.6; extra == "dev"
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Requires-Dist: sphinx_rtd_theme>=2.0.0; extra == "dev"
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Requires-Dist: myst-parser>=2.0.0; extra == "dev"
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Requires-Dist: sphinxcontrib-apidoc>=0.4.0; extra == "dev"
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Requires-Dist: sphinx-automodapi>=0.15.0; extra == "dev"
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Requires-Dist: numpydoc>=1.6.0; extra == "dev"
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Requires-Dist: sphinxcontrib-mermaid>=0.9.2; extra == "dev"
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Requires-Dist: graphviz>=0.20.3; extra == "dev"
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Requires-Dist: sphinx-autobuild>=2021.3.14; extra == "dev"
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Requires-Dist: pytest==8.3.3; extra == "dev"
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Requires-Dist: pytest-mock>=3.14.0; extra == "dev"
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Dynamic: license-file
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<p align="center">
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<img src="https://raw.githubusercontent.com/devojyoti96/aNKflag/refs/heads/master/anklogo.png" alt="aNKflag Logo" width="200"/>
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</p>
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<p align="center">
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<h1>aNKflag</h1> An intelligent radio frequency interference (RFI) removal tool to work in multi-dimensions radio interferometric data.
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</p>
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## Background
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<!-- start elevator-pitch -->
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Radio interferometric observations are generally affected by terrestrial radio emission, known as radio frequency interference (RFI). **aNKflag** is an intelligent tool developed to detect and remove these RFIs both in time-frequency as well as in the Fourier domain, popularly known as **uv-domain** in radio interferometry.
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- aNKflag works on UVFITS files
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- Before flagging one needs to convert CASA measurement set to UVFITS
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- After flagging one needs to convert UVFITS to CASA measurement set and copy the flags to original measurement set.
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- These features are not provided in **aNKflag**, as these are readily available in CASA.
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- This python version uses precompiled and containersed sourcecode of **aNKflag**, so no need to worry about installing C/C++ libraries.
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<!-- end elevator-pitch -->
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## Documentation
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aNKflag documentation is available at: [ankflag.readthedocs.io]
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[ankflag.readthedocs.io]: https://ankflag.readthedocs.io
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## Quickstart
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<!-- start quickstart -->
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**aNKflag** is distributed on [PyPI]. To use it:
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1. Create conda environment with python 3
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```text
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conda create -n ankflag_env python=3.10
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conda activate ankflag_env
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```
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2. Install aNKflag in conda environment
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```text
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pip install ankflag
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```
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3. Initiate necessary metadata and containers
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```text
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run-ankflag init --datadir </full/path/to/data/directory>
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```
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Contaniers will be stored in the data directory.
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4. Run aNKflag
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```text
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run-ankflag run </full/path/to/input/uvfits> </full/path/to/output/uvfits> --scratchdir </full/path/to/ankflag/workdir> --flagmode <uvbin/baseline> --npol <num_of_polarisation> --nthreads <num_of_cpu_threads> --target_type <target_type>
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```
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That's all. You run aNKflag for analysing flagging RFI. It will create a UVFITS file with output file location 🎉.
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[pypi]: https://pypi.org/project/meersolar/
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<!-- end quickstart -->
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## Acknowledgements
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aNKflag is developed by Apurba Bera (ASTRON, NL) and Devojyoti Kansabanik (IAA-CSIC, Spain). If you use **aNKflag** for analysing your work, include the following statement in your paper
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```text
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RFI flagging is perfomed using aNKflag.
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```
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1. Cite aNKflag software in zenodo: https://doi.org/10.5281/zenodo.20568784
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and cite the following papers.
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2. [aNKflag paper: Kansabanik et al., ApJS 2023][kansabanik2023]
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[Kansabanik2023]: https://doi.org/10.3847/1538-4365/acac79
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## License
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This project is licensed under the MIT License.
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ankflag-3.0.0/README.md
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<p align="center">
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<img src="https://raw.githubusercontent.com/devojyoti96/aNKflag/refs/heads/master/anklogo.png" alt="aNKflag Logo" width="200"/>
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</p>
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<p align="center">
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<h1>aNKflag</h1> An intelligent radio frequency interference (RFI) removal tool to work in multi-dimensions radio interferometric data.
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</p>
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## Background
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<!-- start elevator-pitch -->
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Radio interferometric observations are generally affected by terrestrial radio emission, known as radio frequency interference (RFI). **aNKflag** is an intelligent tool developed to detect and remove these RFIs both in time-frequency as well as in the Fourier domain, popularly known as **uv-domain** in radio interferometry.
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- aNKflag works on UVFITS files
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- Before flagging one needs to convert CASA measurement set to UVFITS
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- After flagging one needs to convert UVFITS to CASA measurement set and copy the flags to original measurement set.
|
|
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- These features are not provided in **aNKflag**, as these are readily available in CASA.
|
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- This python version uses precompiled and containersed sourcecode of **aNKflag**, so no need to worry about installing C/C++ libraries.
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<!-- end elevator-pitch -->
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## Documentation
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aNKflag documentation is available at: [ankflag.readthedocs.io]
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[ankflag.readthedocs.io]: https://ankflag.readthedocs.io
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## Quickstart
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<!-- start quickstart -->
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**aNKflag** is distributed on [PyPI]. To use it:
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1. Create conda environment with python 3
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```text
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conda create -n ankflag_env python=3.10
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conda activate ankflag_env
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```
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2. Install aNKflag in conda environment
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```text
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pip install ankflag
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```
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3. Initiate necessary metadata and containers
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```text
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run-ankflag init --datadir </full/path/to/data/directory>
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```
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Contaniers will be stored in the data directory.
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4. Run aNKflag
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```text
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run-ankflag run </full/path/to/input/uvfits> </full/path/to/output/uvfits> --scratchdir </full/path/to/ankflag/workdir> --flagmode <uvbin/baseline> --npol <num_of_polarisation> --nthreads <num_of_cpu_threads> --target_type <target_type>
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```
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That's all. You run aNKflag for analysing flagging RFI. It will create a UVFITS file with output file location 🎉.
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[pypi]: https://pypi.org/project/meersolar/
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<!-- end quickstart -->
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## Acknowledgements
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aNKflag is developed by Apurba Bera (ASTRON, NL) and Devojyoti Kansabanik (IAA-CSIC, Spain). If you use **aNKflag** for analysing your work, include the following statement in your paper
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```text
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RFI flagging is perfomed using aNKflag.
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```
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1. Cite aNKflag software in zenodo: https://doi.org/10.5281/zenodo.20568784
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77
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and cite the following papers.
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2. [aNKflag paper: Kansabanik et al., ApJS 2023][kansabanik2023]
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[Kansabanik2023]: https://doi.org/10.3847/1538-4365/acac79
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## License
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This project is licensed under the MIT License.
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# -----------------------------------------------------------------
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# This file provides the control parameters for aNKflag
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# -----------------------------------------------------------------
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4
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+
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5
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+
Ukey: "UU" # Keyword for u
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6
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Vkey: "VV" # Keyword for v
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7
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Wkey: "WW" # Keyword for w
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8
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+
UgridCal: 1 # Gridsize in u for calibrators
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9
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+
VgridCal: 1 # Gridsize in v for calibrators
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10
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UgridTar: 10 # Gridsize in u for Target
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11
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+
VgridTar: 10 # Gridsize in v for Target
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12
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Npols: 2 # Number of polarizations
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13
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+
N_ants: 30 # Maximum number of antennas
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14
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ScanFlMean: ['rms', 1.5, 1.5, 0.01] # [FLAGON, tolerance_mean, tolearnce_rms, min fraction (should be > 0.01)]]
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15
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# ONLY for 'baseline' mode
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16
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ScanBrkSec: 300.0 # Scan break time (minimum)
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17
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BlockPow: 0.8 # Power low for Block non-Gaussianity
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18
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+
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19
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+
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20
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# Actual flagging parameters
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21
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+
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22
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FlgCalCh0: # Applicable to single channel calibrators only
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23
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- {what: 'rec_ind', flagon: 'mean', stat: 'median', data: 'am', tol: 5.0, minfrac: 0.1}
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24
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- {what: 'rec_ind', flagon: 'mean', stat: 'median', data: 'am', tol: 2.0, minfrac: 0.1}
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25
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- {what: 'rec_ind', flagon: 'mean', stat: 'median', data: 'am', tol: 1.5, minfrac: 0.1}
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26
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- {what: 'rec_ind', flagon: 'mean', stat: 'median', data: 're', tol: 1.2, minfrac: 0.1}
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27
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- {what: 'rec_ind', flagon: 'mean', stat: 'median', data: 'im', tol: 1.2, minfrac: 0.1}
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- {what: 'rec_ind', flagon: 'mean', stat: 'median', data: 'am', tol: 1.1, minfrac: 0.1}
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- {what: 'rec_ind', flagon: 'mean', stat: 'median', data: 're', tol: 1.1, minfrac: 0.1}
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30
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- {what: 'rec_ind', flagon: 'mean', stat: 'median', data: 'im', tol: 1.1, minfrac: 0.1}
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31
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+
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32
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+
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33
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FlgCalBp: # Applicable to bandpass calibrators only
|
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34
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- {what: 'rec_ind', flagon: 'rms', stat: 'median', data: 'am', tol: 5.0, minfrac: 0.1, fitorder: 0}
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35
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 'am', tol: 5.0, minfrac: 0.1, fitorder: 0}
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36
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 5.0, minfrac: 0.1, fitorder: 0}
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- {what: 'chan_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 5.0, minfrac: 0.1, fitorder: 0}
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- {what: 'rec_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 2.0, minfrac: 0.1, fitorder: 0}
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 2.0, minfrac: 0.1, fitorder: 0}
|
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40
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 'am', tol: 1.5, minfrac: 0.1, fitorder: 2}
|
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41
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 're', tol: 1.5, minfrac: 0.1, fitorder: 2}
|
|
42
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 'im', tol: 1.5, minfrac: 0.1, fitorder: 2}
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43
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'median', data: 'am', tol: 1.5, minfrac: 0.1, fitorder: 2}
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'median', data: 're', tol: 1.5, minfrac: 0.1, fitorder: 2}
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45
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'median', data: 'im', tol: 1.5, minfrac: 0.1, fitorder: 2}
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46
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'mean', data: 're', tol: 1.5, minfrac: 0.1, fitorder: 2}
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'mean', data: 'im', tol: 1.5, minfrac: 0.1, fitorder: 2}
|
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48
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'mean', data: 're', tol: 1.5, minfrac: 0.1, fitorder: 2}
|
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49
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'mean', data: 'im', tol: 1.5, minfrac: 0.1, fitorder: 2}
|
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 'am', tol: 1.2, minfrac: 0.1, fitorder: 2}
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51
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 're', tol: 1.2, minfrac: 0.1, fitorder: 2}
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52
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 'im', tol: 1.2, minfrac: 0.1, fitorder: 2}
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53
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'median', data: 'am', tol: 1.2, minfrac: 0.1, fitorder: 2}
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'median', data: 're', tol: 1.2, minfrac: 0.1, fitorder: 2}
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'median', data: 'im', tol: 1.2, minfrac: 0.1, fitorder: 2}
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+
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57
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+
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FlgNorm: # Applicable to calibrated target
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- {what: 'vis_ind', flagon: 'mean', stat: 'mean', data: 'am', tol: 5.0, minfrac: 0.1, fitorder: 0}
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- {what: 'vis_ind', flagon: 'mean', stat: 'mean', data: 'am', tol: 3.0, minfrac: 0.1, fitorder: 0}
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- {what: 'vis_ind', flagon: 'mean', stat: 'median', data: 'am', tol: 2.0, minfrac: 0.1, fitorder: 1}
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- {what: 'chan_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 2.0, minfrac: 0.1, fitorder: 0}
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- {what: 'rec_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 2.0, minfrac: 0.1, fitorder: 0}
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- {what: 'vis_ind', flagon: 'mean', stat: 'median', data: 'am', tol: 1.6, minfrac: 0.1, fitorder: 2}
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- {what: 'chan_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 1.5, minfrac: 0.1, fitorder: 2}
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66
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 1.5, minfrac: 0.1, fitorder: 2}
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- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 're', tol: 1.2, minfrac: 0.1, fitorder: 2}
|
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68
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 'im', tol: 1.2, minfrac: 0.1, fitorder: 2}
|
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69
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'median', data: 're', tol: 1.2, minfrac: 0.1, fitorder: 2}
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70
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+
- {what: 'rec_ind', flagon: 'rms', stat: 'median', data: 'im', tol: 1.2, minfrac: 0.1, fitorder: 2}
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71
|
+
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72
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+
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73
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+
FlgUvsub: # Applicable to UV-subtracted target
|
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74
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+
- {what: 'vis_ind', flagon: 'mean', stat: 'mean', data: 'am', tol: 5.0, minfrac: 0.1, fitorder: 0}
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+
- {what: 'vis_ind', flagon: 'mean', stat: 'mean', data: 'am', tol: 3.0, minfrac: 0.1, fitorder: 0}
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- {what: 'vis_ind', flagon: 'mean', stat: 'median', data: 'am', tol: 2.0, minfrac: 0.1, fitorder: 1}
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- {what: 'chan_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 2.0, minfrac: 0.1, fitorder: 0}
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- {what: 'rec_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 2.0, minfrac: 0.1, fitorder: 0}
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- {what: 'chan_ind', flagon: 'rms', stat: 'mean', data: 'am', tol: 1.5, minfrac: 0.1, fitorder: 2}
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 're', tol: 1.2, minfrac: 0.1, fitorder: 2}
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81
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+
- {what: 'chan_ind', flagon: 'rms', stat: 'median', data: 'im', tol: 1.2, minfrac: 0.1, fitorder: 2}
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File without changes
|