Merge pull request #216 from PEtab-dev/release_0.2.3

Release 0.2.3

Author: dweindl

CHANGELOG.md

@@ -2,17 +2,30 @@
 
 ## 0.2 series
 
+### 0.2.3
+
+* Fixed validation failures in case of missing optional fields in visualization tables
+  by @dweindl in https://github.com/PEtab-dev/libpetab-python/pull/214
+* Make validate_visualization_df work without matplotlib installation
+  by @dweindl @dilpath in https://github.com/PEtab-dev/libpetab-python/pull/215
+
+**Full Changelog**: https://github.com/PEtab-dev/libpetab-python/compare/v0.2.2...v0.2.3
+
 ### 0.2.2
 
 * Fixed IndexError with numpy 1.25.0 by @dweindl in https://github.com/PEtab-dev/libpetab-python/pull/209
 * Made `SbmlModel.from_file(..., model_id)` optional by @dilpath in https://github.com/PEtab-dev/libpetab-python/pull/207
 
+**Full Changelog**: https://github.com/PEtab-dev/libpetab-python/compare/v0.2.1...v0.2.2
+
 ### 0.2.1
 
 Fixes:
 * Fixed an issue in `Problem.to_files(model_file=...)` (#204)
 * Fixed `PySBModel.get_parameter_value`, which incorrectly returned the parameter name instead of its value (#203)
 
+**Full Changelog**: https://github.com/PEtab-dev/libpetab-python/compare/v0.2.0...v0.2.1
+
 ### 0.2.0
 
 Note: petab 0.2.0 requires Python>=3.9

petab/version.py

@@ -1,2 +1,2 @@
 """PEtab library version"""
-__version__ = '0.2.2'
+__version__ = '0.2.3'

petab/visualize/__init__.py

@@ -6,24 +6,32 @@
 ``import petab.visualize``.
 
 """
+import importlib.util
 
-from .plot_data_and_simulation import (
-    plot_without_vis_spec,
-    plot_with_vis_spec,
-    plot_problem,
-)
+mpl_spec = importlib.util.find_spec("matplotlib")
 
-from .plot_residuals import plot_goodness_of_fit, plot_residuals_vs_simulation
-from .plotter import MPLPlotter
 from .plotting import DataProvider, Figure
 
 __all__ = [
-    "plot_without_vis_spec",
-    "plot_with_vis_spec",
-    "plot_problem",
-    "plot_goodness_of_fit",
-    "plot_residuals_vs_simulation",
-    "MPLPlotter",
     "DataProvider",
     "Figure"
 ]
+
+if mpl_spec is not None:
+    from .plot_data_and_simulation import (
+        plot_without_vis_spec,
+        plot_with_vis_spec,
+        plot_problem,
+    )
+
+    from .plot_residuals import plot_goodness_of_fit, plot_residuals_vs_simulation
+    from .plotter import MPLPlotter
+
+    __all__.extend([
+        "plot_without_vis_spec",
+        "plot_with_vis_spec",
+        "plot_problem",
+        "plot_goodness_of_fit",
+        "plot_residuals_vs_simulation",
+        "MPLPlotter",
+    ])

petab/visualize/lint.py

@@ -124,7 +124,7 @@ def set_default(column: str, value):
         if column not in vis_df:
             vis_df[column] = value
         elif value is not None:
-            vis_df[column].fillna(value)
+            vis_df[column].fillna(value, inplace=True)
 
     set_default(C.PLOT_NAME, "")
     set_default(C.PLOT_TYPE_SIMULATION, C.LINE_PLOT)