Fix quarto notebooks

Author: jpvelez

template/.gitignore.jinja

@@ -69,14 +69,6 @@ venv.bak/
 packrat/lib*/
 packrat/src/
 
-# renv
-renv/library/
-renv/local/
-renv/cellar/
-renv/lock/
-renv/python/
-renv/staging/
-
 {% endif %}
 
 # IDEs
@@ -99,3 +91,6 @@ Thumbs.db
 {% if python_package  %}site/
 {% endif %}{% if python_data_science  %}.quarto/
 {% endif %}tmp/
+
+_site
+_freeze

template/{% if python_data_science or r_data_science %}notebooks{% endif %}/index.qmd.jinja

@@ -82,22 +82,18 @@ format: html
 
 Then you write in **Markdown** with optional **code blocks**:
 
-````markdown
+````{markdown eval="false"}
 # My Analysis
 
 Some text here.
 
-{% if python_data_science  and r_data_science  %}```{python}
+{% if python_data_science %}```{python}
 print("Hello from Python!")
 ```
-
-```{r}
+{% endif %}{% if r_data_science %}```{r}
 print("Hello from R!")
-```{% elif python_data_science  %}```{python}
-print("Hello, Quarto!")
-```{% elif r_data_science  %}```{r}
-print("Hello, Quarto!")
-```{% endif %}
+```
+{% endif %}
 
 More text here.
 ````

template/{% if python_data_science or r_data_science %}notebooks{% endif %}/{% if python_data_science %}py_example.qmd{% endif %}

@@ -20,7 +20,7 @@ import numpy as np
 
 # Set up plotting style
 sns.set_theme(style="whitegrid")
-plt.rcParams['figure.figsize'] = (10, 6)
+plt.rcParams["figure.figsize"] = (10, 6)
 ```
 
 ## Create Sample Data
@@ -125,18 +125,19 @@ Let's demonstrate some more advanced Polars functionality:
 ```{python}
 # Window functions and complex aggregations
 advanced_analysis = (
-    data
-    .with_columns([
-        # Add rank within each category
-        pl.col("value").rank().over("category").alias("value_rank"),
-        # Add rolling mean
-        pl.col("score").rolling_mean(window_size=50).alias("score_rolling_mean"),
-        # Add conditional column
-        pl.when(pl.col("value") > pl.col("value").mean())
-        .then(pl.lit("Above Average"))
-        .otherwise(pl.lit("Below Average"))
-        .alias("value_category")
-    ])
+    data.with_columns(
+        [
+            # Add rank within each category
+            pl.col("value").rank().over("category").alias("value_rank"),
+            # Add rolling mean
+            pl.col("score").rolling_mean(window_size=50).alias("score_rolling_mean"),
+            # Add conditional column
+            pl.when(pl.col("value") > pl.col("value").mean())
+            .then(pl.lit("Above Average"))
+            .otherwise(pl.lit("Below Average"))
+            .alias("value_category"),
+        ]
+    )
     .filter(pl.col("score") > 25)  # Filter for scores > 25
     .sort("value", descending=True)
 )

template/{% if python_data_science or r_data_science %}notebooks{% endif %}/{% if r_data_science %}r_example.qmd{% endif %}

@@ -3,7 +3,6 @@ title: "A Quarto Page Layout Example"
 subtitle: "Inspired by Tufte Handout, Using Quarto"
 date: "`r Sys.Date()`"
 format:
-    pdf: default
     html:
       self-contained: true
       grid: