From b6909520cb8c404be2aa094efdae77ad5401af7f Mon Sep 17 00:00:00 2001
From: Sravan Pannala <57152030+sravanpannala@users.noreply.github.com>
Date: Fri, 29 Sep 2023 12:25:53 -0400
Subject: [PATCH] bugfix initial concentration

---
 degradation_model/initialize_model.ipynb | 31 +++++++++++++++++-------
 1 file changed, 22 insertions(+), 9 deletions(-)

diff --git a/degradation_model/initialize_model.ipynb b/degradation_model/initialize_model.ipynb
index 449ec638fb..f4b0cfe1ec 100644
--- a/degradation_model/initialize_model.ipynb
+++ b/degradation_model/initialize_model.ipynb
@@ -30,7 +30,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": 4,
+   "execution_count": 3,
    "metadata": {},
    "outputs": [
     {
@@ -55,7 +55,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": null,
+   "execution_count": 4,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -80,7 +80,7 @@
   },
   {
    "cell_type": "code",
-   "execution_count": null,
+   "execution_count": 5,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -98,17 +98,17 @@
   },
   {
    "cell_type": "code",
-   "execution_count": null,
+   "execution_count": 6,
    "metadata": {},
    "outputs": [],
    "source": [
-    "cs_n_init = parameter_values.evaluate(x_init* param.c_n_max)\n",
-    "cs_p_init = parameter_values.evaluate(y_init* param.c_p_max)"
+    "cs_n_init = parameter_values.evaluate(x_init* param.n.prim.c_max)\n",
+    "cs_p_init = parameter_values.evaluate(y_init* param.p.prim.c_max)"
    ]
   },
   {
    "cell_type": "code",
-   "execution_count": null,
+   "execution_count": 7,
    "metadata": {},
    "outputs": [],
    "source": [
@@ -128,9 +128,22 @@
   },
   {
    "cell_type": "code",
-   "execution_count": null,
+   "execution_count": 8,
    "metadata": {},
-   "outputs": [],
+   "outputs": [
+    {
+     "name": "stderr",
+     "output_type": "stream",
+     "text": [
+      "CasADi - 2023-09-29 12:19:49 WARNING(\"The options 't0', 'tf', 'grid' and 'output_t0' have been deprecated.\n",
+      "The same functionality is provided by providing additional input arguments to the 'integrator' function, in particular:\n",
+      " * Call integrator(..., t0, tf, options) for a single output time, or\n",
+      " * Call integrator(..., t0, grid, options) for multiple grid points.\n",
+      "The legacy 'output_t0' option can be emulated by including or excluding 't0' in 'grid'.\n",
+      "Backwards compatibility is provided in this release only.\") [.../casadi/core/integrator.cpp:515]\n"
+     ]
+    }
+   ],
    "source": [
     "c_rate_d = \"C/3\"\n",
     "c_rate_c = \"C/3\"\n",