🐛 Fix: add try-except block to solve rel path error for static plots on CI tests

Author: sayalaruano

basic_example_vuegen_demo_notebook_config.yaml

@@ -0,0 +1,184 @@
+report:
+  title: Basic Example Vuegen Demo Notebook
+  description: 'A general description of the report.
+
+    '
+  graphical_abstract: ''
+  logo: ''
+sections:
+- title: ''
+  description: Components added to homepage.
+  components:
+  - title: Description
+    file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/description.md
+    description: ''
+    caption: ''
+    component_type: markdown
+- title: Plots
+  description: ''
+  subsections:
+  - title: Interactive Plots
+    description: 'Optional description for section.
+
+      '
+    components:
+    - title: Top Species Plot By Biome Plotly
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/1_Plots/1_Interactive_plots/1_top_species_plot_by_biome_plotly.json
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: plotly
+    - title: Multiline Plot Altair
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/1_Plots/1_Interactive_plots/2_multiline_plot_altair.json
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: altair
+    - title: Pie Plot Countries Plotly
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/1_Plots/1_Interactive_plots/3_pie_plot_countries_plotly.json
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: plotly
+    - title: Pie Plots Biomes Plotly
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/1_Plots/1_Interactive_plots/4_pie_plots_biomes_plotly.json
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: plotly
+    - title: Saline Metagenomics Samples Map Altair
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/1_Plots/1_Interactive_plots/5_saline_metagenomics_samples_map_altair.json
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: altair
+    - title: Plotly Plot R
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/1_Plots/1_Interactive_plots/6_plotly_plot_R.json
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: plotly
+    - title: Description
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/1_Plots/1_Interactive_plots/description.md
+      description: ''
+      caption: ''
+      component_type: markdown
+  - title: Static Plots
+    description: ''
+    components:
+    - title: Number Samples Per Study
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/1_Plots/2_Static_plots/1_number_samples_per_study.png
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: static
+    - title: Animal Metagenomics Samples Map
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/1_Plots/2_Static_plots/2_animal_metagenomics_samples_map.png
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: static
+    - title: Alpha Diversity Host Associated Samples
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/1_Plots/2_Static_plots/3_alpha_diversity_host_associated_samples.png
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: static
+  components: []
+- title: Dataframes
+  description: ''
+  subsections:
+  - title: All Formats
+    description: ''
+    components:
+    - title: Phyla Correlation Network Csv
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/2_Dataframes/1_All_formats/1_phyla_correlation_network_csv.csv
+      description: ''
+      caption: ''
+      component_type: dataframe
+      file_format: csv
+      delimiter: ','
+    - title: Abundance Table Example Xls
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/2_Dataframes/1_All_formats/2_abundance_table_example_xls.xls
+      description: ''
+      caption: ''
+      component_type: dataframe
+      file_format: xls
+    - title: Sample Info Example Txt
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/2_Dataframes/1_All_formats/3_sample_info_example_txt.txt
+      description: ''
+      caption: ''
+      component_type: dataframe
+      file_format: txt
+      delimiter: \t
+    - title: Sample Info Example Parquet
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/2_Dataframes/1_All_formats/4_sample_info_example_parquet.parquet
+      description: ''
+      caption: ''
+      component_type: dataframe
+      file_format: parquet
+  components: []
+- title: Networks
+  description: ''
+  subsections:
+  - title: Interactive Networks
+    description: 'Optional description for subsection.
+
+      '
+    components:
+    - title: Man Example
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/3_Networks/1_Interactive_networks/1_man_example.graphml
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: interactive_network
+    - title: Description
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/3_Networks/1_Interactive_networks/description.md
+      description: ''
+      caption: ''
+      component_type: markdown
+  - title: Static Networks
+    description: ''
+    components:
+    - title: Phyla Correlation Network
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/3_Networks/2_Static_networks/1_phyla_correlation_network.png
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: static
+  components: []
+- title: Html
+  description: ''
+  subsections:
+  - title: All Html
+    description: ''
+    components:
+    - title: Plot
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/4_Html/1_All_html/1_plot.html
+      description: ''
+      caption: ''
+      component_type: html
+    - title: Ckg Network
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/4_Html/1_All_html/2_ckg_network.html
+      description: ''
+      caption: ''
+      component_type: plot
+      plot_type: interactive_network
+    - title: Multiqc Report
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/4_Html/1_All_html/3_multiqc_report.html
+      description: ''
+      caption: ''
+      component_type: html
+  components: []
+- title: Markdown
+  description: ''
+  subsections:
+  - title: All Markdown
+    description: ''
+    components:
+    - title: Readme
+      file_path: /Users/asaru/Documents/DTU/MoNA/VueGen/vuegen/docs/example_data/Basic_example_vuegen_demo_notebook/5_Markdown/1_All_markdown/README.md
+      description: ''
+      caption: ''
+      component_type: markdown
+  components: []

src/vuegen/streamlit_reportview.py

@@ -585,8 +585,14 @@ def _generate_plot_content(self, plot) -> List[str]:
         # Add content for the different plot types
         try:
             if plot.plot_type == r.PlotType.STATIC:
+                try:
+                    plot_rel_path = Path(plot.file_path).relative_to(Path.cwd())
+                except ValueError:
+                    plot_rel_path = (
+                        Path(plot.file_path).resolve().relative_to(Path.cwd().resolve())
+                    )
                 plot_content.append(
-                    f"\nst.image('{Path(plot.file_path).relative_to(Path.cwd()).as_posix()}', caption='{plot.caption}', use_column_width=True)\n"
+                    f"\nst.image('{plot_rel_path.as_posix()}', caption='{plot.caption}', use_column_width=True)\n"
                 )
             elif plot.plot_type == r.PlotType.PLOTLY:
                 plot_content.append(self._generate_plot_code(plot))