From 5fb9eaae47839254d73121662693e439f5ae2d9a Mon Sep 17 00:00:00 2001 From: Julian Kappler Date: Wed, 29 May 2024 15:00:32 +0200 Subject: [PATCH] added references to paper on arXiv (http://arxiv.org/abs/2405.18381) --- PySTFP/symbolic.py | 2 +- README.md | 2 +- examples/derivations/entropy production rates.ipynb | 2 +- .../derivations/perturbative propagators and moments.ipynb | 2 +- examples/entropy production in physical units.ipynb | 2 +- examples/numerical example/analytical solution.ipynb | 2 +- examples/plot propagator.ipynb | 2 +- examples/propagator in physical units.ipynb | 2 +- examples/useful_definitions.py | 3 +++ 9 files changed, 11 insertions(+), 8 deletions(-) diff --git a/PySTFP/symbolic.py b/PySTFP/symbolic.py index 3e383df..7da5957 100644 --- a/PySTFP/symbolic.py +++ b/PySTFP/symbolic.py @@ -17,7 +17,7 @@ [1] Short-time Fokker-Planck propagator beyond the Gaussian approximation, Julian Kappler - [update once the paper is on the arXiv] + arXiv: http://arxiv.org/abs/2405.18381 '''; diff --git a/README.md b/README.md index 37dfbbc..fc313f4 100644 --- a/README.md +++ b/README.md @@ -79,4 +79,4 @@ PySTFP requires sympy and numpy, the example notebooks furthermore use matplotli ## References -[1] **Short-time Fokker-Planck propagator beyond the Gaussian approximation**. J. Kappler. arXiv: add link once paper has been uploaded to the arXiv. +[1] **Short-time Fokker-Planck propagator beyond the Gaussian approximation**. J. Kappler. arXiv: [2405.18381](http://arxiv.org/abs/2405.18381). diff --git a/examples/derivations/entropy production rates.ipynb b/examples/derivations/entropy production rates.ipynb index d8e0cec..b50bb83 100644 --- a/examples/derivations/entropy production rates.ipynb +++ b/examples/derivations/entropy production rates.ipynb @@ -6,7 +6,7 @@ "source": [ "## Introduction\n", "\n", - "We here calculate the various entropy production (rates) discussed in Appendix D of the paper *[add reference here once the paper is on the arXiv]*, which we in the following refer to as Ref. [1]." + "We here calculate the various entropy production (rates) discussed in Appendix D of the paper \"Short-time Fokker-Planck propagator beyond the Gaussian approximation\" (arXiv: http://arxiv.org/abs/2405.18381), which we in the following refer to as Ref. [1]." ] }, { diff --git a/examples/derivations/perturbative propagators and moments.ipynb b/examples/derivations/perturbative propagators and moments.ipynb index 1c776d6..097acb6 100644 --- a/examples/derivations/perturbative propagators and moments.ipynb +++ b/examples/derivations/perturbative propagators and moments.ipynb @@ -26,7 +26,7 @@ "source": [ "## Introduction\n", "\n", - "This notebook contains the sympy code to derive the explicit analytical perturbative expressions discussed in [add reference once the paper is on arXiv], which in the following we refer to as Ref. [1].\n", + "This notebook contains the sympy code to derive the explicit analytical perturbative expressions discussed in the paper \"Short-time Fokker-Planck propagator beyond the Gaussian approximation\" (arXiv: http://arxiv.org/abs/2405.18381), which in the following we refer to as Ref. [1].\n", "\n", "In this notebook, we symbolically calculate\n", "* the coefficients of the normalization-preserving propagator (NPP; Eq. (23) in Ref. [1])\n", diff --git a/examples/entropy production in physical units.ipynb b/examples/entropy production in physical units.ipynb index e72c330..94d4251 100644 --- a/examples/entropy production in physical units.ipynb +++ b/examples/entropy production in physical units.ipynb @@ -9,7 +9,7 @@ "In this notebook, we print the leading-order short-time behavior of the medium entropy production rate, the total entropy production rate, and the Gibbs entropy.\n", "\n", "The expressions we print are Eqs. (D15), (D16), (D17) in the paper\n", - "*[add arXiv reference once the paper has been uploaded]*, which in the following\n", + "\"Short-time Fokker-Planck propagator beyond the Gaussian approximation\" (arXiv: http://arxiv.org/abs/2405.18381), which in the following\n", "we refer to as Ref. [1].\n", "\n", "For this, we first retrieve the dimensionless perturbative expressions from the module PySTFP, and then rewrite them in physical units.\n", diff --git a/examples/numerical example/analytical solution.ipynb b/examples/numerical example/analytical solution.ipynb index 68eb7a8..bd40189 100644 --- a/examples/numerical example/analytical solution.ipynb +++ b/examples/numerical example/analytical solution.ipynb @@ -41,7 +41,7 @@ "source": [ "## Introduction\n", "\n", - "In the paper [add reference once paper is on the arXiv], we derive an approximate short-time propagator for the Fokker-Planck equation. The validate our approximate propagator, we compare it to an exact analytical solution of the Fokker-Planck equation.\n", + "In the paper \"Short-time Fokker-Planck propagator beyond the Gaussian approximation\" (arXiv: http://arxiv.org/abs/2405.18381), we derive an approximate short-time propagator for the Fokker-Planck equation. The validate our approximate propagator, we compare it to an exact analytical solution of the Fokker-Planck equation.\n", "\n", "In the present notebook, we evaluate both this exact analytical solution of the Fokker-Planck equation, and also use it to calculate some expectation values. \n", "\n", diff --git a/examples/plot propagator.ipynb b/examples/plot propagator.ipynb index a5dd443..e8c0868 100644 --- a/examples/plot propagator.ipynb +++ b/examples/plot propagator.ipynb @@ -10,7 +10,7 @@ "drift and diffusivity profile.\n", "\n", "We use the normalization-preserving propagator Eq. (23) from \n", - "*[add arXiv reference once the paper has been uploaded]*, which in the following\n", + "\"Short-time Fokker-Planck propagator beyond the Gaussian approximation\" (arXiv: http://arxiv.org/abs/2405.18381), which in the following\n", "we refer to as Ref. [1].\n", "\n", "The positivity-preserving propagator can be used by setting ''positivity_preserving'' \n", diff --git a/examples/propagator in physical units.ipynb b/examples/propagator in physical units.ipynb index 6d52a91..40c0b74 100644 --- a/examples/propagator in physical units.ipynb +++ b/examples/propagator in physical units.ipynb @@ -12,7 +12,7 @@ "propagator.\n", "\n", "The expressions we print reproduce the results from App. B of the paper\n", - "*[add arXiv reference once the paper has been uploaded]*, which in the following\n", + "\"Short-time Fokker-Planck propagator beyond the Gaussian approximation\" (arXiv: http://arxiv.org/abs/2405.18381), which in the following\n", "we refer to as Ref. [1].\n", "\n", "In the following, we first retrieve the dimensionless perturbative expressions \n", diff --git a/examples/useful_definitions.py b/examples/useful_definitions.py index 396a615..faf97e2 100644 --- a/examples/useful_definitions.py +++ b/examples/useful_definitions.py @@ -1,6 +1,9 @@ import sympy as sp from math import factorial +# References: +# [1] "Short-time Fokker-Planck propagator beyond the Gaussian approximation" +# J. Kappler. arXiv: http://arxiv.org/abs/2405.18381 epsilon = sp.symbols(r'\epsilon',real=True,positive=True)