| Name | siren JSON |
| Version |
0.0.3
JSON |
| download |
| home_page | None |
| Summary | Sampling and Injection for Rare EveNts: A neutrino and rare-process injection toolkit |
| upload_time | 2024-06-05 19:14:12 |
| maintainer | None |
| docs_url | None |
| author | None |
| requires_python | >=3.8 |
| license | GNU LESSER GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007 Free Software Foundation, Inc. <https://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. This version of the GNU Lesser General Public License incorporates the terms and conditions of version 3 of the GNU General Public License, supplemented by the additional permissions listed below. 0. Additional Definitions. As used herein, "this License" refers to version 3 of the GNU Lesser General Public License, and the "GNU GPL" refers to version 3 of the GNU General Public License. "The Library" refers to a covered work governed by this License, other than an Application or a Combined Work as defined below. An "Application" is any work that makes use of an interface provided by the Library, but which is not otherwise based on the Library. Defining a subclass of a class defined by the Library is deemed a mode of using an interface provided by the Library. A "Combined Work" is a work produced by combining or linking an Application with the Library. The particular version of the Library with which the Combined Work was made is also called the "Linked Version". The "Minimal Corresponding Source" for a Combined Work means the Corresponding Source for the Combined Work, excluding any source code for portions of the Combined Work that, considered in isolation, are based on the Application, and not on the Linked Version. The "Corresponding Application Code" for a Combined Work means the object code and/or source code for the Application, including any data and utility programs needed for reproducing the Combined Work from the Application, but excluding the System Libraries of the Combined Work. 1. Exception to Section 3 of the GNU GPL. You may convey a covered work under sections 3 and 4 of this License without being bound by section 3 of the GNU GPL. 2. Conveying Modified Versions. If you modify a copy of the Library, and, in your modifications, a facility refers to a function or data to be supplied by an Application that uses the facility (other than as an argument passed when the facility is invoked), then you may convey a copy of the modified version: a) under this License, provided that you make a good faith effort to ensure that, in the event an Application does not supply the function or data, the facility still operates, and performs whatever part of its purpose remains meaningful, or b) under the GNU GPL, with none of the additional permissions of this License applicable to that copy. 3. Object Code Incorporating Material from Library Header Files. The object code form of an Application may incorporate material from a header file that is part of the Library. You may convey such object code under terms of your choice, provided that, if the incorporated material is not limited to numerical parameters, data structure layouts and accessors, or small macros, inline functions and templates (ten or fewer lines in length), you do both of the following: a) Give prominent notice with each copy of the object code that the Library is used in it and that the Library and its use are covered by this License. b) Accompany the object code with a copy of the GNU GPL and this license document. 4. Combined Works. You may convey a Combined Work under terms of your choice that, taken together, effectively do not restrict modification of the portions of the Library contained in the Combined Work and reverse engineering for debugging such modifications, if you also do each of the following: a) Give prominent notice with each copy of the Combined Work that the Library is used in it and that the Library and its use are covered by this License. b) Accompany the Combined Work with a copy of the GNU GPL and this license document. c) For a Combined Work that displays copyright notices during execution, include the copyright notice for the Library among these notices, as well as a reference directing the user to the copies of the GNU GPL and this license document. d) Do one of the following: 0) Convey the Minimal Corresponding Source under the terms of this License, and the Corresponding Application Code in a form suitable for, and under terms that permit, the user to recombine or relink the Application with a modified version of the Linked Version to produce a modified Combined Work, in the manner specified by section 6 of the GNU GPL for conveying Corresponding Source. 1) Use a suitable shared library mechanism for linking with the Library. A suitable mechanism is one that (a) uses at run time a copy of the Library already present on the user's computer system, and (b) will operate properly with a modified version of the Library that is interface-compatible with the Linked Version. e) Provide Installation Information, but only if you would otherwise be required to provide such information under section 6 of the GNU GPL, and only to the extent that such information is necessary to install and execute a modified version of the Combined Work produced by recombining or relinking the Application with a modified version of the Linked Version. (If you use option 4d0, the Installation Information must accompany the Minimal Corresponding Source and Corresponding Application Code. If you use option 4d1, you must provide the Installation Information in the manner specified by section 6 of the GNU GPL for conveying Corresponding Source.) 5. Combined Libraries. You may place library facilities that are a work based on the Library side by side in a single library together with other library facilities that are not Applications and are not covered by this License, and convey such a combined library under terms of your choice, if you do both of the following: a) Accompany the combined library with a copy of the same work based on the Library, uncombined with any other library facilities, conveyed under the terms of this License. b) Give prominent notice with the combined library that part of it is a work based on the Library, and explaining where to find the accompanying uncombined form of the same work. 6. Revised Versions of the GNU Lesser General Public License. The Free Software Foundation may publish revised and/or new versions of the GNU Lesser General Public License from time to time. Such new versions will be similar in spirit to the present version, but may differ in detail to address new problems or concerns. Each version is given a distinguishing version number. If the Library as you received it specifies that a certain numbered version of the GNU Lesser General Public License "or any later version" applies to it, you have the option of following the terms and conditions either of that published version or of any later version published by the Free Software Foundation. If the Library as you received it does not specify a version number of the GNU Lesser General Public License, you may choose any version of the GNU Lesser General Public License ever published by the Free Software Foundation. If the Library as you received it specifies that a proxy can decide whether future versions of the GNU Lesser General Public License shall apply, that proxy's public statement of acceptance of any version is permanent authorization for you to choose that version for the Library. |
| keywords |
physics
hep
netrino
bsm
simulation
injection
weighting
|
| VCS |
 |
| bugtrack_url |
|
| requirements |
No requirements were recorded.
|
| Travis-CI |
No Travis.
|
| coveralls test coverage |
No coveralls.
|
[](https://github.com/Harvard-Neutrino/SIREN/actions/workflows/build_wheels.yml)
# SIREN
SIREN (**S**ampling and **I**njection for **R**are **E**ve**N**ts) is a framework for injecting and weighting interaction final states of complex topology, with specific concern for the detector geometry. SIREN is designed to support a wide variety of neutrino experimental setups, including atmospheric neutrinos, accelerator beam decay-in-flight neutrinos, and neutrinos from decay-at-rest sources. SIREN grew out of [LeptonInjector](https://github.com/icecube/LeptonInjector), a neutrino injection code developed within the IceCube collaboration to study atmospheric and astrophysical neutrino interactions in the IceCube detector.
SIREN provides a generic interface for user-defined BSM processes (and includes several pre-defined processes). It also supports generation of any number of secondary processes, e.g. the decay of a BSM particle after it has been created by an initial process. SIREN also includes detector geometry definitions for a number of existing HEP experiments, although contributions are always appreciated!
# Python installation of SIREN
SIREN is distributed on pypi as `siren`, and can be installed via pip with:
```
pip install siren
```
For development of SIREN as a python project, simply clone the repository:
```
git clone https://github.com/Harvard-Neutrino/SIREN.git
cd SIREN
```
and run the following command to build and install SIREN:
```
pip install . --config-settings='build-dir=build'
```
After the python bindings are installed, you should be able to import the `siren` python library. Open a python interpreter by running `python`, and then run
```
import siren
```
To use SIREN, you will
1. Define a primary process and a list of secondary processes by specifying a particle type and which interactions (cross sections or decays) each particle can undergo
2. For each (primary or secondary) process, define a set of distributions from which to sample when injecting that particle (e.g. energy, position, direction)
3. Combine this information to define an InjectorBase object
4. Generate interaction trees using the InjectorBase object
5. Create a TreeWeighter object using a list of primary and secondary physical processes
6. Calculate the event weight for each interaction tree using the TreeWeighter object
For an example of this in action, see `resources/DipoleInjection/inject_HNLs_CCM.{py,ipynb}`
# Dependencies
For local installations, you need the following:
* A C++ compiler with C++14 support.
* Some classes also require Photospline to create and to read cross sections. Read more about it, and its installation at [github.com/icecube/photospline](https://github.com/icecube/photospline). Note that Photospline has dependencies that you will need that are not listed here.
* SIREN requires Photospline's `SuiteSparse` capabilities, whose dependencies are available [here](http://faculty.cse.tamu.edu/davis/suitesparse.html).
For building py-bindings,
* Python > 3.8
* That's it! We use pybind11 to generate our pybindings, which is automatically included in SIREN as a submodule
# Included External Dependencies
These are not ostensibly a part of SIREN, but are included automatically as submodules for its functionality.
* [cereal](https://github.com/USCiLab/cereal): for serialization
* [delabella](https://github.com/msokalski/delabella): for Delaunay triangulation in our interpolation classes
* [googletest](https://github.com/google/googletest): for constructing our tests
* [pybind11](https://github.com/pybind/pybind11): for compiling our python bindings
* [rk](https://rk.hepforge.org/): a relativistic kinematics library used mostly in the CrossSection and Decay subclasses
* [photospline](https://github.com/icecube/photospline): a library that uses the penalized spline technique to efficiently compute, store, and evaluate B-spline representations of such large multi-dimensional tables
# C++ installation of SIREN
To use SIREN in a C++ project, there are a few more steps.
We will be trying to keep our source, build, and install directories separate. To this end, these instructions will assume the following directory structure:
```
| local (for installing built libraries, headers, and binaries)
| --lib
| --include
| --bin
| source (source code for SIREN and other dependencies)
| --SIREN
| --build (for building SIREN)
| --(SIREN dependencies...)
```
`git clone git@github.com:Harvard-Neutrino/SIREN.git`
or
`git clone https://github.com/Harvard-Neutrino/SIREN.git`
to download the source code. To download the submodules, run
`git submodule update --init`
Now `cd SIREN/build` to get to the build directory. We call cmake
`cmake ../ -DCMAKE_INSTALL_PREFIX=../../local`
This tells cmake to install the shared objects in the `local` directory. CMake prepares a `Makefile` which calls the `g++` compiler with the necessary instructions to compile. So now you'll call
`make -j4 && make install`
to build the project and install the project. Now you need to set all the environmental variables so this actually works. We recommend putting the followig commands into a `env.sh` script that can load the environment.
```
export PROJECTSPACE=/path/to/parent/directory
export PROJECTBUILDPATH=$PROJECTSPACE/local
export PROJECTSOURCEPATH=$PROJECTSPACE/source
export PREFIX=$PROJECTBUILDPATH
# On linux:
export LD_LIBRARY_PATH=$PROJECTBUILDPATH/lib/:$LD_LIBRARY_PATH
# On mac:
export DYLD_FALLBACK_LIBRARY_PATH=$PROJECTBUILDPATH/lib/:$DYLD_FALLBACK_LIBRARY_PATH
```
Now you should be good to go!
# Making Contributions
If you would like to make contributions to this project, please create a branch off of the `main` branch and name it something following the template: `$YourLastName/$YourSubProject`.
Work on this branch until you have made the changes you wished to see and your branch is stable.
Then, pull from main, and create a pull request to merge your branch back into main.
Raw data
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"author": null,
"author_email": "Austin Schneider <aschn@mit.edu>, Nicholas Kamp <nkamp@fas.harvard.edu>",
"download_url": null,
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"description": "[](https://github.com/Harvard-Neutrino/SIREN/actions/workflows/build_wheels.yml)\n\n# SIREN\n\nSIREN (**S**ampling and **I**njection for **R**are **E**ve**N**ts) is a framework for injecting and weighting interaction final states of complex topology, with specific concern for the detector geometry. SIREN is designed to support a wide variety of neutrino experimental setups, including atmospheric neutrinos, accelerator beam decay-in-flight neutrinos, and neutrinos from decay-at-rest sources. SIREN grew out of [LeptonInjector](https://github.com/icecube/LeptonInjector), a neutrino injection code developed within the IceCube collaboration to study atmospheric and astrophysical neutrino interactions in the IceCube detector.\n\nSIREN provides a generic interface for user-defined BSM processes (and includes several pre-defined processes). It also supports generation of any number of secondary processes, e.g. the decay of a BSM particle after it has been created by an initial process. SIREN also includes detector geometry definitions for a number of existing HEP experiments, although contributions are always appreciated!\n\n# Python installation of SIREN\n\nSIREN is distributed on pypi as `siren`, and can be installed via pip with:\n\n```\npip install siren\n```\n\nFor development of SIREN as a python project, simply clone the repository:\n\n```\ngit clone https://github.com/Harvard-Neutrino/SIREN.git\ncd SIREN\n```\n\nand run the following command to build and install SIREN:\n\n```\npip install . --config-settings='build-dir=build'\n```\n\nAfter the python bindings are installed, you should be able to import the `siren` python library. Open a python interpreter by running `python`, and then run\n\n```\nimport siren\n```\n\nTo use SIREN, you will\n\n1. Define a primary process and a list of secondary processes by specifying a particle type and which interactions (cross sections or decays) each particle can undergo\n\n2. For each (primary or secondary) process, define a set of distributions from which to sample when injecting that particle (e.g. energy, position, direction)\n\n3. Combine this information to define an InjectorBase object\n\n4. Generate interaction trees using the InjectorBase object\n\n5. Create a TreeWeighter object using a list of primary and secondary physical processes\n\n6. Calculate the event weight for each interaction tree using the TreeWeighter object\n\nFor an example of this in action, see `resources/DipoleInjection/inject_HNLs_CCM.{py,ipynb}`\n\n# Dependencies\n\nFor local installations, you need the following:\n\n* A C++ compiler with C++14 support.\n\n* Some classes also require Photospline to create and to read cross sections. Read more about it, and its installation at [github.com/icecube/photospline](https://github.com/icecube/photospline). Note that Photospline has dependencies that you will need that are not listed here.\n\n* SIREN requires Photospline's `SuiteSparse` capabilities, whose dependencies are available [here](http://faculty.cse.tamu.edu/davis/suitesparse.html).\n\nFor building py-bindings,\n\n* Python > 3.8\n\n* That's it! We use pybind11 to generate our pybindings, which is automatically included in SIREN as a submodule\n\n\n# Included External Dependencies\n\nThese are not ostensibly a part of SIREN, but are included automatically as submodules for its functionality.\n\n* [cereal](https://github.com/USCiLab/cereal): for serialization\n\n* [delabella](https://github.com/msokalski/delabella): for Delaunay triangulation in our interpolation classes\n\n* [googletest](https://github.com/google/googletest): for constructing our tests\n\n* [pybind11](https://github.com/pybind/pybind11): for compiling our python bindings\n\n* [rk](https://rk.hepforge.org/): a relativistic kinematics library used mostly in the CrossSection and Decay subclasses\n\n* [photospline](https://github.com/icecube/photospline): a library that uses the penalized spline technique to efficiently compute, store, and evaluate B-spline representations of such large multi-dimensional tables\n\n# C++ installation of SIREN\n\nTo use SIREN in a C++ project, there are a few more steps.\n\nWe will be trying to keep our source, build, and install directories separate. To this end, these instructions will assume the following directory structure:\n\n```\n| local (for installing built libraries, headers, and binaries)\n| --lib\n| --include\n| --bin\n| source (source code for SIREN and other dependencies)\n| --SIREN\n| --build (for building SIREN)\n| --(SIREN dependencies...)\n```\n\n`git clone git@github.com:Harvard-Neutrino/SIREN.git`\n\nor\n\n`git clone https://github.com/Harvard-Neutrino/SIREN.git`\n\nto download the source code. To download the submodules, run\n\n`git submodule update --init`\n\nNow `cd SIREN/build` to get to the build directory. We call cmake\n\n`cmake ../ -DCMAKE_INSTALL_PREFIX=../../local`\n\nThis tells cmake to install the shared objects in the `local` directory. CMake prepares a `Makefile` which calls the `g++` compiler with the necessary instructions to compile. So now you'll call\n\n`make -j4 && make install`\n\nto build the project and install the project. Now you need to set all the environmental variables so this actually works. We recommend putting the followig commands into a `env.sh` script that can load the environment.\n\n```\nexport PROJECTSPACE=/path/to/parent/directory\nexport PROJECTBUILDPATH=$PROJECTSPACE/local\nexport PROJECTSOURCEPATH=$PROJECTSPACE/source\nexport PREFIX=$PROJECTBUILDPATH\n# On linux:\nexport LD_LIBRARY_PATH=$PROJECTBUILDPATH/lib/:$LD_LIBRARY_PATH\n# On mac:\nexport DYLD_FALLBACK_LIBRARY_PATH=$PROJECTBUILDPATH/lib/:$DYLD_FALLBACK_LIBRARY_PATH\n```\n\nNow you should be good to go!\n\n# Making Contributions\nIf you would like to make contributions to this project, please create a branch off of the `main` branch and name it something following the template: `$YourLastName/$YourSubProject`.\nWork on this branch until you have made the changes you wished to see and your branch is stable.\nThen, pull from main, and create a pull request to merge your branch back into main.\n",
"bugtrack_url": null,
"license": "GNU LESSER GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007 Free Software Foundation, Inc. <https://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. This version of the GNU Lesser General Public License incorporates the terms and conditions of version 3 of the GNU General Public License, supplemented by the additional permissions listed below. 0. Additional Definitions. As used herein, \"this License\" refers to version 3 of the GNU Lesser General Public License, and the \"GNU GPL\" refers to version 3 of the GNU General Public License. \"The Library\" refers to a covered work governed by this License, other than an Application or a Combined Work as defined below. An \"Application\" is any work that makes use of an interface provided by the Library, but which is not otherwise based on the Library. Defining a subclass of a class defined by the Library is deemed a mode of using an interface provided by the Library. A \"Combined Work\" is a work produced by combining or linking an Application with the Library. The particular version of the Library with which the Combined Work was made is also called the \"Linked Version\". The \"Minimal Corresponding Source\" for a Combined Work means the Corresponding Source for the Combined Work, excluding any source code for portions of the Combined Work that, considered in isolation, are based on the Application, and not on the Linked Version. The \"Corresponding Application Code\" for a Combined Work means the object code and/or source code for the Application, including any data and utility programs needed for reproducing the Combined Work from the Application, but excluding the System Libraries of the Combined Work. 1. Exception to Section 3 of the GNU GPL. You may convey a covered work under sections 3 and 4 of this License without being bound by section 3 of the GNU GPL. 2. Conveying Modified Versions. If you modify a copy of the Library, and, in your modifications, a facility refers to a function or data to be supplied by an Application that uses the facility (other than as an argument passed when the facility is invoked), then you may convey a copy of the modified version: a) under this License, provided that you make a good faith effort to ensure that, in the event an Application does not supply the function or data, the facility still operates, and performs whatever part of its purpose remains meaningful, or b) under the GNU GPL, with none of the additional permissions of this License applicable to that copy. 3. Object Code Incorporating Material from Library Header Files. The object code form of an Application may incorporate material from a header file that is part of the Library. You may convey such object code under terms of your choice, provided that, if the incorporated material is not limited to numerical parameters, data structure layouts and accessors, or small macros, inline functions and templates (ten or fewer lines in length), you do both of the following: a) Give prominent notice with each copy of the object code that the Library is used in it and that the Library and its use are covered by this License. b) Accompany the object code with a copy of the GNU GPL and this license document. 4. Combined Works. You may convey a Combined Work under terms of your choice that, taken together, effectively do not restrict modification of the portions of the Library contained in the Combined Work and reverse engineering for debugging such modifications, if you also do each of the following: a) Give prominent notice with each copy of the Combined Work that the Library is used in it and that the Library and its use are covered by this License. b) Accompany the Combined Work with a copy of the GNU GPL and this license document. c) For a Combined Work that displays copyright notices during execution, include the copyright notice for the Library among these notices, as well as a reference directing the user to the copies of the GNU GPL and this license document. d) Do one of the following: 0) Convey the Minimal Corresponding Source under the terms of this License, and the Corresponding Application Code in a form suitable for, and under terms that permit, the user to recombine or relink the Application with a modified version of the Linked Version to produce a modified Combined Work, in the manner specified by section 6 of the GNU GPL for conveying Corresponding Source. 1) Use a suitable shared library mechanism for linking with the Library. A suitable mechanism is one that (a) uses at run time a copy of the Library already present on the user's computer system, and (b) will operate properly with a modified version of the Library that is interface-compatible with the Linked Version. e) Provide Installation Information, but only if you would otherwise be required to provide such information under section 6 of the GNU GPL, and only to the extent that such information is necessary to install and execute a modified version of the Combined Work produced by recombining or relinking the Application with a modified version of the Linked Version. (If you use option 4d0, the Installation Information must accompany the Minimal Corresponding Source and Corresponding Application Code. If you use option 4d1, you must provide the Installation Information in the manner specified by section 6 of the GNU GPL for conveying Corresponding Source.) 5. Combined Libraries. You may place library facilities that are a work based on the Library side by side in a single library together with other library facilities that are not Applications and are not covered by this License, and convey such a combined library under terms of your choice, if you do both of the following: a) Accompany the combined library with a copy of the same work based on the Library, uncombined with any other library facilities, conveyed under the terms of this License. b) Give prominent notice with the combined library that part of it is a work based on the Library, and explaining where to find the accompanying uncombined form of the same work. 6. Revised Versions of the GNU Lesser General Public License. The Free Software Foundation may publish revised and/or new versions of the GNU Lesser General Public License from time to time. Such new versions will be similar in spirit to the present version, but may differ in detail to address new problems or concerns. Each version is given a distinguishing version number. If the Library as you received it specifies that a certain numbered version of the GNU Lesser General Public License \"or any later version\" applies to it, you have the option of following the terms and conditions either of that published version or of any later version published by the Free Software Foundation. If the Library as you received it does not specify a version number of the GNU Lesser General Public License, you may choose any version of the GNU Lesser General Public License ever published by the Free Software Foundation. If the Library as you received it specifies that a proxy can decide whether future versions of the GNU Lesser General Public License shall apply, that proxy's public statement of acceptance of any version is permanent authorization for you to choose that version for the Library.",
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