Added the updated binder links.

Alan Kaptanoglu · Alan Kaptanoglu · commit 288cf6e895b1 · 2022-04-30T14:27:58.000-07:00
diff --git a/examples/10_PDEFIND_examples.ipynb b/examples/10_PDEFIND_examples.ipynb
@@ -10,7 +10,7 @@
     "This notebook provides a simple overview of the PDE functionality of PySINDy, following the examples in the PDE-FIND paper (Rudy, Samuel H., Steven L. Brunton, Joshua L. Proctor, and J. Nathan Kutz. \"Data-driven discovery of partial differential equations.\" Science Advances 3, no. 4 (2017): e1602614.). Jupyter notebook written by Alan Kaptanoglu.\n",
     "\n",
     "An interactive version of this notebook is available on binder\n",
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/10_PDEFIND_examples.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/10_PDEFIND_examples.ipynb)"
    ]
   },
   {
diff --git a/examples/11_SSR_FROLS_examples.ipynb b/examples/11_SSR_FROLS_examples.ipynb
@@ -11,7 +11,7 @@
     "Jupyter notebook written by Alan Kaptanoglu and Jared Callaham.\n",
     "\n",
     "An interactive version of this notebook is available on binder\n",
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/11_SSR_FROLS_examples.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/11_SSR_FROLS_examples.ipynb)"
    ]
   },
   {
diff --git a/examples/12_weakform_SINDy_examples.ipynb b/examples/12_weakform_SINDy_examples.ipynb
@@ -12,7 +12,7 @@
     "As of release 1.7, the weak formulation is vectorized and much faster to compute. The \"num_pts_per_domain\" variable is now deprecated. It can still be passed to the WeakPDELibrary to avoid breaking old code, but it will raise a DeprecationWarning and do nothing to the library.\n",
     "\n",
     "An interactive version of this notebook is available on binder\n",
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6?filepath=examples/12_weakform_SINDy_examples.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/12_weakform_SINDy_examples.ipynb)"
    ]
   },
   {
@@ -1617,7 +1617,7 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "Python 3 (ipykernel)",
+   "display_name": "Python 3",
    "language": "python",
    "name": "python3"
   },
@@ -1631,7 +1631,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.9.7"
+   "version": "3.7.4"
   },
   "toc": {
    "base_numbering": 1,
diff --git a/examples/13_ensembling.ipynb b/examples/13_ensembling.ipynb
@@ -11,7 +11,7 @@
     "This notebook provides an overview of the basic and advanced functionality of using ensemble methods in PySINDy. Ensembling robustifies the SINDy method. Written by Alan Kaptanoglu and Urban Fasel. \n",
     "\n",
     "An interactive version of this notebook is available on binder\n",
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/13_ensembling.ipynb)\n",
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/13_ensembling.ipynb)\n",
     "\n",
     "There are many variants of ensembling/subsampling strategies and post-processing methods. We will show the following useful variants below: <br> <br>\n",
     "Ensembling: <br>\n",
diff --git a/examples/14_cavity_flow.ipynb b/examples/14_cavity_flow.ipynb
@@ -25,7 +25,7 @@
     "This Jupyter notebook example is written by Jared Callaham and demonstrates the use of SINDy to learn a model for the quasiperiodic dynamics in a shear-driven cavity at Re=7500, following [Callaham, Brunton, and Loiseau (2021)](https://arxiv.org/abs/2106.02409).  It will focus on working through a relatively involved fluid dynamics example, rather than comparing optimizers, libraries, etc.  This example also includes some other more advanced SINDy \"tricks\" like using dynamic mode decomposition to rotate the generalized coordinates and co-opting some of the SINDy infrastructure to perform nonlinear dimensionality reduction.\n",
     "\n",
     "An interactive version of this notebook is available on binder\n",
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/14_cavity_flow.ipynb)\n",
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/14_cavity_flow.ipynb)\n",
     "\n",
     "As in the cylinder wake example (see notebook 3), the reduced-order model appproximates the 2D time-varying velocity field $\\mathbf{u}(\\mathbf{x}, t)$ with the POD expansion\n",
     "$$\n",
diff --git a/examples/15_pysindy_lectures.ipynb b/examples/15_pysindy_lectures.ipynb
@@ -8,7 +8,7 @@
     "\n",
     "This notebook is a summary of the PySINDy YouTube lectures found [here](https://www.youtube.com/playlist?list=PLN90bHJU-JLoOfEk0KyBs2qLTV7OkMZ25). \n",
     "An interactive version of this notebook is available on binder\n",
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/15_pysindy_lectures.ipynb)\n",
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/15_pysindy_lectures.ipynb)\n",
     "\n",
     "These examples show how to use the SINDy method in practice, addressing the following practical questions:\n",
     "1. #### How does one choose the thresholding parameter $\\lambda$?\n",
diff --git a/examples/1_feature_overview.ipynb b/examples/1_feature_overview.ipynb
@@ -20,7 +20,7 @@
     }
    },
    "source": [
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/1_feature_overview.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/1_feature_overview.ipynb)"
    ]
   },
   {
@@ -2724,7 +2724,7 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "Python 3 (ipykernel)",
+   "display_name": "Python 3",
    "language": "python",
    "name": "python3"
   },
@@ -2738,7 +2738,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.9.7"
+   "version": "3.7.4"
   },
   "toc": {
    "base_numbering": 1,
diff --git a/examples/2_introduction_to_sindy.ipynb b/examples/2_introduction_to_sindy.ipynb
@@ -17,7 +17,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/2_introduction_to_sindy.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/2_introduction_to_sindy.ipynb)"
    ]
   },
   {
diff --git a/examples/3_original_paper.ipynb b/examples/3_original_paper.ipynb
@@ -13,7 +13,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/3_original_paper.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/3_original_paper.ipynb)"
    ]
   },
   {
diff --git a/examples/4_scikit_learn_compatibility.ipynb b/examples/4_scikit_learn_compatibility.ipynb
@@ -12,7 +12,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/4_scikit_learn_compatibility.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/4_scikit_learn_compatibility.ipynb)"
    ]
   },
   {
diff --git a/examples/5_differentiation.ipynb b/examples/5_differentiation.ipynb
@@ -13,7 +13,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/5_differentiation.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/5_differentiation.ipynb)"
    ]
   },
   {
diff --git a/examples/6_deeptime_compatibility.ipynb b/examples/6_deeptime_compatibility.ipynb
@@ -15,7 +15,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/6_deeptime_compatibility.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/6_deeptime_compatibility.ipynb)"
    ]
   },
   {
diff --git a/examples/7_plasma_examples.ipynb b/examples/7_plasma_examples.ipynb
@@ -12,7 +12,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/7_plasma_examples.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/7_plasma_examples.ipynb)"
    ]
   },
   {
diff --git a/examples/8_trapping_sindy_paper_examples.ipynb b/examples/8_trapping_sindy_paper_examples.ipynb
@@ -21,7 +21,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/8_trapping_sindy_paper_examples.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/8_trapping_sindy_paper_examples.ipynb)"
    ]
   },
   {
diff --git a/examples/9_sindypi_with_sympy.ipynb b/examples/9_sindypi_with_sympy.ipynb
@@ -13,7 +13,7 @@
     "We should clarify that building SINDy libraries $\\mathbf{\\Theta}(\\mathbf{x}, \\dot{\\mathbf{x}})$ depending on both $\\mathbf{x}$ and $\\dot{\\mathbf{x}}$ is also possible with any of the PySINDy libraries. However, in that case one must be sure to omit the linear $\\dot{\\mathbf{x}}$ term in the library (since then the SINDy model will just fit $\\dot{\\mathbf{x}} = \\dot{\\mathbf{x}}$) and otherwise be careful about the matrix conditioning. The benefit of not using the SINDy-PI functionality is that you can avoid using SymPy (see below).\n",
     "\n",
     "An interactive version of this notebook is available on binder\n",
-    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/9_sindypi_with_sympy.ipynb)"
+    "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/9_sindypi_with_sympy.ipynb)"
    ]
   },
   {

Original file line number	Diff line number	Diff line change
`@@ -10,7 +10,7 @@`
`10`	`10`	`"This notebook provides a simple overview of the PDE functionality of PySINDy, following the examples in the PDE-FIND paper (Rudy, Samuel H., Steven L. Brunton, Joshua L. Proctor, and J. Nathan Kutz. \"Data-driven discovery of partial differential equations.\" Science Advances 3, no. 4 (2017): e1602614.). Jupyter notebook written by Alan Kaptanoglu.\n",`
`11`	`11`	`"\n",`
`12`	`12`	`"An interactive version of this notebook is available on binder\n",`
`13`		`- "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/10_PDEFIND_examples.ipynb)"`
	`13`	`+ "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/10_PDEFIND_examples.ipynb)"`
`14`	`14`	`]`
`15`	`15`	`},`
`16`	`16`	`{`
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`@@ -11,7 +11,7 @@`
`11`	`11`	`"Jupyter notebook written by Alan Kaptanoglu and Jared Callaham.\n",`
`12`	`12`	`"\n",`
`13`	`13`	`"An interactive version of this notebook is available on binder\n",`
`14`		`- "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/11_SSR_FROLS_examples.ipynb)"`
	`14`	`+ "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/11_SSR_FROLS_examples.ipynb)"`
`15`	`15`	`]`
`16`	`16`	`},`
`17`	`17`	`{`
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`@@ -17,7 +17,7 @@`
`17`	`17`	`"cell_type": "markdown",`
`18`	`18`	`"metadata": {},`
`19`	`19`	`"source": [`
`20`		`- "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/2_introduction_to_sindy.ipynb)"`
	`20`	`+ "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/2_introduction_to_sindy.ipynb)"`
`21`	`21`	`]`
`22`	`22`	`},`
`23`	`23`	`{`
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`@@ -13,7 +13,7 @@`
`13`	`13`	`"cell_type": "markdown",`
`14`	`14`	`"metadata": {},`
`15`	`15`	`"source": [`
`16`		`- "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/3_original_paper.ipynb)"`
	`16`	`+ "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/3_original_paper.ipynb)"`
`17`	`17`	`]`
`18`	`18`	`},`
`19`	`19`	`{`
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`@@ -12,7 +12,7 @@`
`12`	`12`	`"cell_type": "markdown",`
`13`	`13`	`"metadata": {},`
`14`	`14`	`"source": [`
`15`		`- "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.6.1?filepath=examples/4_scikit_learn_compatibility.ipynb)"`
	`15`	`+ "[![Binder](https://mybinder.org/badge_logo.svg)](https://mybinder.org/v2/gh/dynamicslab/pysindy/v1.7?filepath=examples/4_scikit_learn_compatibility.ipynb)"`
`16`	`16`	`]`
`17`	`17`	`},`
`18`	`18`	`{`