Finish Release-v112

.gitignore

@@ -8,3 +8,4 @@
 /porousmedialab.egg-info/
 /dist/
 *.sublime-project
+/.vscode/

README.md

@@ -32,6 +32,9 @@ Have a look at ["examples"](https://github.com/biogeochemistry/PorousMediaLab/tr
 - in terminal run command ```jupyter notebook```;
 - you will see the folders of PorousMediaLab project, you can go in "examples" folder and play with them;
 
+# Citation
+
+I. Markelov (2017), The toolbox for batch and 1D reactive transport modeling in porous media aimed on easiness of use for user without computational background, GitHub repository: https://github.com/biogeochemistry/PorousMediaLab, DOI: 10.5281/zenodo.1039644
 
 # MIT License
 

changelog.txt

@@ -1,5 +1,12 @@
 # porousmedialab changelog
 
+## 1.1.2
+
+2017-11-06
+
+### FIXED
+
+- pre_run_methods() bug fix: when model are setup to integrate from i=0 it throws an error "undefined 'solver' in scipy".
 
 ## 1.1.1
 

examples/.ipynb_checkpoints/.gitignore

@@ -0,0 +1 @@
+*-checkpoint.ipynb

examples/Batch experiment - Calcite-Gypsum Evaporation.ipynb → examples/Batch - Calcite-Gypsum Evaporation.ipynb

@@ -150,6 +150,7 @@
    "cell_type": "code",
    "execution_count": 7,
    "metadata": {
+    "collapsed": false,
     "scrolled": false
    },
    "outputs": [
@@ -176,6 +177,7 @@
    "cell_type": "code",
    "execution_count": 8,
    "metadata": {
+    "collapsed": false,
     "scrolled": false
    },
    "outputs": [
@@ -295,7 +297,9 @@
   {
    "cell_type": "code",
    "execution_count": 9,
-   "metadata": {},
+   "metadata": {
+    "collapsed": false
+   },
    "outputs": [
     {
      "data": {
@@ -368,7 +372,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.5.2"
+   "version": "3.5.3"
   }
  },
  "nbformat": 4,

examples/Batch experiment - Evaporation and Calcite Precipitation.ipynb → examples/Batch - Evaporation and Calcite Precipitation.ipynb

@@ -103,6 +103,7 @@
    "cell_type": "code",
    "execution_count": 20,
    "metadata": {
+    "collapsed": false,
     "scrolled": false
    },
    "outputs": [
@@ -129,6 +130,7 @@
    "cell_type": "code",
    "execution_count": 21,
    "metadata": {
+    "collapsed": false,
     "scrolled": false
    },
    "outputs": [
@@ -208,7 +210,9 @@
   {
    "cell_type": "code",
    "execution_count": 22,
-   "metadata": {},
+   "metadata": {
+    "collapsed": false
+   },
    "outputs": [
     {
      "data": {
@@ -250,7 +254,9 @@
   {
    "cell_type": "code",
    "execution_count": 24,
-   "metadata": {},
+   "metadata": {
+    "collapsed": false
+   },
    "outputs": [
     {
      "data": {
@@ -304,7 +310,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.5.2"
+   "version": "3.5.3"
   }
  },
  "nbformat": 4,

examples/FT_presentation_simple_3.ipynb → examples/Column - Freeze-Thaw.ipynb

@@ -184,7 +184,9 @@
   {
    "cell_type": "code",
    "execution_count": 9,
-   "metadata": {},
+   "metadata": {
+    "collapsed": false
+   },
    "outputs": [
     {
      "name": "stdout",
@@ -236,7 +238,9 @@
   {
    "cell_type": "code",
    "execution_count": 11,
-   "metadata": {},
+   "metadata": {
+    "collapsed": false
+   },
    "outputs": [
     {
      "data": {
@@ -274,6 +278,7 @@
    "cell_type": "code",
    "execution_count": 12,
    "metadata": {
+    "collapsed": false,
     "scrolled": false
    },
    "outputs": [
@@ -353,6 +358,7 @@
    "cell_type": "code",
    "execution_count": 13,
    "metadata": {
+    "collapsed": false,
     "scrolled": false
    },
    "outputs": [
@@ -401,7 +407,9 @@
   {
    "cell_type": "code",
    "execution_count": 14,
-   "metadata": {},
+   "metadata": {
+    "collapsed": false
+   },
    "outputs": [
     {
      "data": {
@@ -456,7 +464,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.5.2"
+   "version": "3.5.3"
   }
  },
  "nbformat": 4,