exostriker 0.88__tar.gz

exostriker-0.88/LICENSE

@@ -0,0 +1,21 @@
+MIT License
+
+Copyright (c) 2018 Trifon Trifonov
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

exostriker-0.88/MANIFEST.in

@@ -0,0 +1 @@
+recursive-include exostriker/ *

exostriker-0.88/PKG-INFO

@@ -0,0 +1,238 @@
+Metadata-Version: 2.1
+Name: exostriker
+Version: 0.88
+Summary: This is the 'Transit and Radial velocity Interactive Fitting tool for Orbital analysis and N-body simulations: The Exo-Striker'
+Author-email: Trifon Trifonov <trifonov@mpia.de>, "Matheus J. Castro" <matheusdejesuscastro@gmail.com>
+License: MIT License
+        
+        Copyright (c) 2018 Trifon Trifonov
+        
+        Permission is hereby granted, free of charge, to any person obtaining a copy
+        of this software and associated documentation files (the "Software"), to deal
+        in the Software without restriction, including without limitation the rights
+        to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+        copies of the Software, and to permit persons to whom the Software is
+        furnished to do so, subject to the following conditions:
+        
+        The above copyright notice and this permission notice shall be included in all
+        copies or substantial portions of the Software.
+        
+        THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+        IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+        FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+        AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+        LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+        OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+        SOFTWARE.
+        
+Project-URL: homepage, https://exostriker-manual.readthedocs.io/
+Project-URL: repository, https://github.com/3fon3fonov/exostriker
+Project-URL: Bug Tracker, https://github.com/3fon3fonov/exostriker/issues
+Classifier: Programming Language :: Python :: 3
+Classifier: License :: OSI Approved :: MIT License
+Classifier: Operating System :: OS Independent
+Requires-Python: >=3.8
+Description-Content-Type: text/markdown
+License-File: LICENSE
+Requires-Dist: numpy>=1.21
+Requires-Dist: scipy>=1.2.1
+Requires-Dist: matplotlib>=3.3.1
+Requires-Dist: formlayout==1.2.0
+Requires-Dist: PyQt6
+Requires-Dist: jupyter
+Requires-Dist: jupyter-client
+Requires-Dist: ipykernel
+Requires-Dist: qtconsole
+Requires-Dist: pathos>=0.2.5
+Requires-Dist: emcee>=3.0.2
+Requires-Dist: celerite>=0.3.1
+Requires-Dist: batman-package>=2.4.8
+Requires-Dist: ttvfast>=0.3.0
+Requires-Dist: wotan>=1.7
+Requires-Dist: openai
+Requires-Dist: desktop_file
+Requires-Dist: pywin32; sys_platform == "win32"
+
+
+**T**ransit and **R**adial velocity **I**nteractive **F**itting tool for **O**rbital analysis and **N**-body simulations: **The Exo-Striker** 
+
+<p align="center">
+  <img width="400" src="./exostriker/source/png/33_striker.png">
+</p>
+ 
+The Exo-Striker analyzes exoplanet orbitals, performs N-body simulations, and models the RV stellar reflex motion caused by dynamically interacting planets in multi-planetary systems. It offers a broad range of tools for detailed analysis of transit and Doppler data, including power spectrum analysis for Doppler and transit data; Keplerian and dynamical modeling of multi-planet systems; MCMC and nested sampling; Gaussian Processes modeling; and a long-term stability check of multi-planet systems. The Exo-Striker can also perform Mean Motion Resonance (MMR) analysis, create fast fully interactive plots, and export ready-to-use LaTeX tables with best-fit parameters, errors, and statistics. It combines Fortran efficiency and Python flexibility and is cross-platform compatible (MAC OS, Linux, Windows). 
+
+ <p align="center">
+  <img width="800" src="./exostriker/source/png/ES_new.gif">
+</p>
+
+
+**Documentation, Instructions, and Tutorials**
+
+* (Work in progress) documentation is available at [https://exostriker-manual.readthedocs.io](https://exostriker-manual.readthedocs.io/en/latest/).
+
+**Developer**
+
+* Trifon Trifonov, MPIA Heidelberg.
+* with contributions by Matheus J. Castro, Jakub Morawski, Mathias Zechmeister, Man Hoi Lee, Stefan Dreizler, Grigorii Smirnov-Pinchukov, Stephan Stock, Jonas Kemmer, Harry Psarakis, Tom Schiwy, and Desislava Antonova.
+
+**What works**:
+
+* RV signal and alias search: via GLS periodogram & maximum lnL periodogram (MLP).
+* Transit signal search (via "TLS").
+* Interactive transit photometry detrending (via "wotan").
+* Keplerian and Dynamical modeling of RV & Transit photometry exoplanet data.
+* Joint RVs + Transit + GPs best-fit optimization (internal Fortran Simplex and L-M minimizers, or many more via "SciPyOp").
+* Joint RVs + Transit + GPs MCMC/Nested Sampling (via "emcee" & "dynesty") 
+* TTVs extraction.
+* TTVs and/or joint TTVs + RVs analysis.
+* Relative astrometry fitting.
+* GP modeling (via "celerite").
+* Linear models for detrending ground-based transit photometry.
+* Activity index signal search via GLS periodogram.
+* RVs vs. Activity time-series correlation analysis/plots.
+* RV auto-fit (RV automated planet-finder algorithm).
+* Interactive data binning, cliping, outlier removal, etc.
+* Fit for apsidal orbital precession, or apply General Relativity (GR) precession. 
+* Instant online access to the "RVBank" database (over 212 000 RVs and activity indices of about 3000 HARPS stars & over 64 000 RVs and activity indices of about 1700 HIRES stars !!!).
+* Instant AMD stability check for multiple planetary systems (including during optimization or MCMC/Nested Sampling).
+* Long-term stability check of multiple planetary systems using SyMBA, MVS, and MVS with a GR precession.
+* Fully interactive, super-fast, high-quality, exportable plots.
+* Handy "cornerplot" GUI control.
+* Import/Export of work sessions and multi-sessions. 
+* Export plots to a matplotlib window for further customization.
+* Export ready to use LaTeX tables with best-fit parameters, errors, and statistics. 
+* Handy text-editor and calculator tools.
+* Multi-platform: It works on MAC OS (10.6+), Linux (Suse, Mint, Ubuntu, etc.) and Windows 10.
+* Integrated Bash-shell (Linux only).
+* Integrated Jupyter shell.
+* Integrated AI Boot (via openai GPT-3 -- ChatGPT).
+* Importable as a standard python library (i.e., "import exostriker").
+* Print the GUI screen into a .jpeg/.png image (useful for sharing quick results, just like the image above).
+* Direct import of TESS & K2 *lc.fits, and CHEOPS *SCI_COR*.fits files.
+
+**What is to be implemented**:
+
+* Larger arsenal of N-body/dynamical simulation/analysis tools (+ "REBOUND" is planned to be included). 
+* Internal TTV and photo-dynamical modeling (i.e. the external "TTVFast" will become a secondary option).
+* Combined modeling with Astrometry (As of Ver 0.75 this is possible, but is still work in progress).
+
+
+Feedback and help in further development will be highly appreciated!
+A wish-list with your favorite tools and methods to be implemented is also welcome!
+
+Just open an "Issue" on the GitHub, or send a PM to trifonov@mpia.de.
+
+
+**Installation**
+ 
+Python3.11+ is strongly recommended!!! The Exo-Striker works with older Python3 versions, and even Python2, but you will likely have problems with some dependencies, which you may have to solve.
+If your system Python3 is 3.10 and below, it is recommended to not upgrade the python3, but to install python3.10 alongside your system python3. 
+
+
+Appart of Python3.10/3.11 make sure you have 'gcc', 'gfortran', and 'csh',
+which will be needed for compiling some of the important binaries!
+
+
+**See README_install.md** for further instructions.
+
+
+
+**Usage**
+
+* To load the GUI, on a bash shell type: 
+
+$ exostriker (in case of pip3.8 install, see above)
+
+* or just do:
+
+$ python3.11 exostriker_gui.py (inside of the git clone directory, see above)
+ 
+
+
+* If you want to use the library on the Python shell/script
+
+In [1]: import exostriker
+
+* or e.g., to load the RV routines:
+
+In [1]: import exostriker.lib.RV_mod as rv
+    
+    
+* Remember! Every button/action of the GUI is a wrapper of a convenient Python routine. Thus scripting is very easy:
+
+<p align="center">
+  <img width="500" src="./exostriker/source/png/ES_terminal.png">
+</p>
+
+ 
+(However, one must be familiar with the functions and the 'fit' object... 
+A manual is planned but not available at the moment.)
+
+
+**Credit**
+
+If you made the use of The Exo-Striker for your paper, I would appreciate it if you give credit to it.
+As it is unlikely that I will find time to write a refereed paper on The Exo-Striker soon, please cite the tool with its ASCL ID ascl:1906.004 (see https://ascl.net/1906.004).    
+ 
+The Exo-Striker relies on many open-source packages, which if you had made the use of (some of) them while working with the tool, 
+you should acknowledge too. (It is your responsibility to find the correct references in the literature):    
+
+
+* The interactive plotting is done with a custom version of the "pyqtgraph": 
+
+http://www.pyqtgraph.org/
+
+* "GLS" and "MLP" periodograms are taken from Mathias Zechmeister's repo: 
+
+https://github.com/mzechmeister/python
+
+* "TLS" and "wotan" are taken from: 
+
+https://github.com/hippke/tls
+
+https://github.com/hippke/wotan
+
+* The transit modeling is done with "batman":
+ 
+https://github.com/lkreidberg/batman
+
+* MCMC sampling is done with "emcee": 
+
+https://github.com/dfm/emcee
+
+* Nested Sampling is done with "dynesty": 
+
+https://github.com/joshspeagle/dynesty
+
+* TTV models are adopted from "TTVfast-python":
+
+https://github.com/mindriot101/ttvfast-python
+
+* The "Text editor" used in the tool is a hack between "Megasolid Idiom" 
+and "PyEdit2":
+
+https://github.com/mfitzp/15-minute-apps/tree/master/wordprocessor
+
+https://github.com/Axel-Erfurt/PyEdit2
+
+* N-body tests are performed using a custom version of the "Swift" N-body library,
+modified by Man Hoi Lee (HKU) and Trifon Trifonov (MPIA).
+
+https://www.boulder.swri.edu/~hal/swift.html
+
+* Additionally, the Exo-Striker uses many "standard" Python libraries like 
+"PyQt5/PyQt6", "matplotlib", "numpy", "scipy", "dill", "Jupyter", "qtconsole",
+and more.
+
+* The Exo-Striker project was inspired by the Systemic project.
+
+http://www.stefanom.org/systemic/
+
+
+
+**Scientific papers which one way or another made the use of the Exo-Striker (to my knowledge):**
+
+ 
+[Check in ADS](https://ui.adsabs.harvard.edu/abs/2019ascl.soft06004T/citations)
+

exostriker-0.88/README.md

@@ -0,0 +1,183 @@
+
+**T**ransit and **R**adial velocity **I**nteractive **F**itting tool for **O**rbital analysis and **N**-body simulations: **The Exo-Striker** 
+
+<p align="center">
+  <img width="400" src="./exostriker/source/png/33_striker.png">
+</p>
+ 
+The Exo-Striker analyzes exoplanet orbitals, performs N-body simulations, and models the RV stellar reflex motion caused by dynamically interacting planets in multi-planetary systems. It offers a broad range of tools for detailed analysis of transit and Doppler data, including power spectrum analysis for Doppler and transit data; Keplerian and dynamical modeling of multi-planet systems; MCMC and nested sampling; Gaussian Processes modeling; and a long-term stability check of multi-planet systems. The Exo-Striker can also perform Mean Motion Resonance (MMR) analysis, create fast fully interactive plots, and export ready-to-use LaTeX tables with best-fit parameters, errors, and statistics. It combines Fortran efficiency and Python flexibility and is cross-platform compatible (MAC OS, Linux, Windows). 
+
+ <p align="center">
+  <img width="800" src="./exostriker/source/png/ES_new.gif">
+</p>
+
+
+**Documentation, Instructions, and Tutorials**
+
+* (Work in progress) documentation is available at [https://exostriker-manual.readthedocs.io](https://exostriker-manual.readthedocs.io/en/latest/).
+
+**Developer**
+
+* Trifon Trifonov, MPIA Heidelberg.
+* with contributions by Matheus J. Castro, Jakub Morawski, Mathias Zechmeister, Man Hoi Lee, Stefan Dreizler, Grigorii Smirnov-Pinchukov, Stephan Stock, Jonas Kemmer, Harry Psarakis, Tom Schiwy, and Desislava Antonova.
+
+**What works**:
+
+* RV signal and alias search: via GLS periodogram & maximum lnL periodogram (MLP).
+* Transit signal search (via "TLS").
+* Interactive transit photometry detrending (via "wotan").
+* Keplerian and Dynamical modeling of RV & Transit photometry exoplanet data.
+* Joint RVs + Transit + GPs best-fit optimization (internal Fortran Simplex and L-M minimizers, or many more via "SciPyOp").
+* Joint RVs + Transit + GPs MCMC/Nested Sampling (via "emcee" & "dynesty") 
+* TTVs extraction.
+* TTVs and/or joint TTVs + RVs analysis.
+* Relative astrometry fitting.
+* GP modeling (via "celerite").
+* Linear models for detrending ground-based transit photometry.
+* Activity index signal search via GLS periodogram.
+* RVs vs. Activity time-series correlation analysis/plots.
+* RV auto-fit (RV automated planet-finder algorithm).
+* Interactive data binning, cliping, outlier removal, etc.
+* Fit for apsidal orbital precession, or apply General Relativity (GR) precession. 
+* Instant online access to the "RVBank" database (over 212 000 RVs and activity indices of about 3000 HARPS stars & over 64 000 RVs and activity indices of about 1700 HIRES stars !!!).
+* Instant AMD stability check for multiple planetary systems (including during optimization or MCMC/Nested Sampling).
+* Long-term stability check of multiple planetary systems using SyMBA, MVS, and MVS with a GR precession.
+* Fully interactive, super-fast, high-quality, exportable plots.
+* Handy "cornerplot" GUI control.
+* Import/Export of work sessions and multi-sessions. 
+* Export plots to a matplotlib window for further customization.
+* Export ready to use LaTeX tables with best-fit parameters, errors, and statistics. 
+* Handy text-editor and calculator tools.
+* Multi-platform: It works on MAC OS (10.6+), Linux (Suse, Mint, Ubuntu, etc.) and Windows 10.
+* Integrated Bash-shell (Linux only).
+* Integrated Jupyter shell.
+* Integrated AI Boot (via openai GPT-3 -- ChatGPT).
+* Importable as a standard python library (i.e., "import exostriker").
+* Print the GUI screen into a .jpeg/.png image (useful for sharing quick results, just like the image above).
+* Direct import of TESS & K2 *lc.fits, and CHEOPS *SCI_COR*.fits files.
+
+**What is to be implemented**:
+
+* Larger arsenal of N-body/dynamical simulation/analysis tools (+ "REBOUND" is planned to be included). 
+* Internal TTV and photo-dynamical modeling (i.e. the external "TTVFast" will become a secondary option).
+* Combined modeling with Astrometry (As of Ver 0.75 this is possible, but is still work in progress).
+
+
+Feedback and help in further development will be highly appreciated!
+A wish-list with your favorite tools and methods to be implemented is also welcome!
+
+Just open an "Issue" on the GitHub, or send a PM to trifonov@mpia.de.
+
+
+**Installation**
+ 
+Python3.11+ is strongly recommended!!! The Exo-Striker works with older Python3 versions, and even Python2, but you will likely have problems with some dependencies, which you may have to solve.
+If your system Python3 is 3.10 and below, it is recommended to not upgrade the python3, but to install python3.10 alongside your system python3. 
+
+
+Appart of Python3.10/3.11 make sure you have 'gcc', 'gfortran', and 'csh',
+which will be needed for compiling some of the important binaries!
+
+
+**See README_install.md** for further instructions.
+
+
+
+**Usage**
+
+* To load the GUI, on a bash shell type: 
+
+$ exostriker (in case of pip3.8 install, see above)
+
+* or just do:
+
+$ python3.11 exostriker_gui.py (inside of the git clone directory, see above)
+ 
+
+
+* If you want to use the library on the Python shell/script
+
+In [1]: import exostriker
+
+* or e.g., to load the RV routines:
+
+In [1]: import exostriker.lib.RV_mod as rv
+    
+    
+* Remember! Every button/action of the GUI is a wrapper of a convenient Python routine. Thus scripting is very easy:
+
+<p align="center">
+  <img width="500" src="./exostriker/source/png/ES_terminal.png">
+</p>
+
+ 
+(However, one must be familiar with the functions and the 'fit' object... 
+A manual is planned but not available at the moment.)
+
+
+**Credit**
+
+If you made the use of The Exo-Striker for your paper, I would appreciate it if you give credit to it.
+As it is unlikely that I will find time to write a refereed paper on The Exo-Striker soon, please cite the tool with its ASCL ID ascl:1906.004 (see https://ascl.net/1906.004).    
+ 
+The Exo-Striker relies on many open-source packages, which if you had made the use of (some of) them while working with the tool, 
+you should acknowledge too. (It is your responsibility to find the correct references in the literature):    
+
+
+* The interactive plotting is done with a custom version of the "pyqtgraph": 
+
+http://www.pyqtgraph.org/
+
+* "GLS" and "MLP" periodograms are taken from Mathias Zechmeister's repo: 
+
+https://github.com/mzechmeister/python
+
+* "TLS" and "wotan" are taken from: 
+
+https://github.com/hippke/tls
+
+https://github.com/hippke/wotan
+
+* The transit modeling is done with "batman":
+ 
+https://github.com/lkreidberg/batman
+
+* MCMC sampling is done with "emcee": 
+
+https://github.com/dfm/emcee
+
+* Nested Sampling is done with "dynesty": 
+
+https://github.com/joshspeagle/dynesty
+
+* TTV models are adopted from "TTVfast-python":
+
+https://github.com/mindriot101/ttvfast-python
+
+* The "Text editor" used in the tool is a hack between "Megasolid Idiom" 
+and "PyEdit2":
+
+https://github.com/mfitzp/15-minute-apps/tree/master/wordprocessor
+
+https://github.com/Axel-Erfurt/PyEdit2
+
+* N-body tests are performed using a custom version of the "Swift" N-body library,
+modified by Man Hoi Lee (HKU) and Trifon Trifonov (MPIA).
+
+https://www.boulder.swri.edu/~hal/swift.html
+
+* Additionally, the Exo-Striker uses many "standard" Python libraries like 
+"PyQt5/PyQt6", "matplotlib", "numpy", "scipy", "dill", "Jupyter", "qtconsole",
+and more.
+
+* The Exo-Striker project was inspired by the Systemic project.
+
+http://www.stefanom.org/systemic/
+
+
+
+**Scientific papers which one way or another made the use of the Exo-Striker (to my knowledge):**
+
+ 
+[Check in ADS](https://ui.adsabs.harvard.edu/abs/2019ascl.soft06004T/citations)
+

exostriker-0.88/exostriker/__init__.py

@@ -0,0 +1 @@
+from exostriker import gui

exostriker-0.88/exostriker/__main__.py

@@ -0,0 +1,2 @@
+from exostriker import gui
+gui.main()

exostriker-0.88/exostriker/datafiles/51Peg_ELODIE.dat

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