Add renaming of roi indices

src/viewer/pages/home.py

@@ -51,27 +51,28 @@ def set_pipeline() -> None:
         """
         - Check out [NiChart Web page](https://neuroimagingchart.com)
         - Visit [NiChart GitHub](https://github.com/CBICA/NiChart_Project)
-        - Jump into our [documentation](https://github.com/CBICA/NiChart_Project)
-        - Ask a question in our [community
-            forums](https://github.com/CBICA/NiChart_Project)
+        - Jump into [our documentation](https://cbica.github.io/NiChart_Project)
+        - Ask a question in [our community discussions](https://github.com/CBICA/NiChart_Project/discussions)
             """
     )
 
     st.markdown(
         """
-        You can try NiChart manually via our github
-        ```bash
-        git clone https://github.com/CBICA/NiChart_Project
-        git submodule update --init --recursive --remote
-        pip install -r requirements.txt
+        You can install NiChart Project desktop
+        ```
+        pip install NiChart_Project
         ```
 
-        And to run the workflows, just run:
-        ```bash
-        python3 run.py --dir_input input folder --dir_output output_folder --studies 1 --version my_version --cores 4 --conda 0
+        and run the application
+        ```
+        cd src/viewer
+        streamlit run NiChartProject.py
         ```
 
-        You can always find more options at our documentation
+        Alternatively, the cloud app can be launched at
+        ```
+        https://cloud.neuroimagingchart.com
+        ```
         """
     )
 
@@ -98,15 +99,9 @@ def set_pipeline() -> None:
         "😊 Your opinion matters! Kindly take a moment to complete these two brief surveys!"
     )
 
-    st.markdown(
-        '<a href=" https://forms.office.com/r/mM1kx1XsgS" target="_blank" style="color: blue; font-size: 16px; font-weight: bold;">NiChart User Experience</a>',
-        unsafe_allow_html=True,
-    )
+    st.link_button('📝 NiChart User Experience', 'https://forms.office.com/r/mM1kx1XsgS')
 
-    st.markdown(
-        '<a href="https://forms.office.com/r/acwgn2WCc4" target="_blank" style="color: blue; font-size: 16px; font-weight: bold;">Shaping the Future of NiChart</a>',
-        unsafe_allow_html=True,
-    )
+    st.link_button('📝 Shaping the Future of NiChart', 'https://forms.office.com/r/acwgn2WCc4')
 
 # FIXME: For DEBUG
 utilst.add_debug_panel()

src/viewer/pages/plot_sMRI_vars_study.py

@@ -87,9 +87,13 @@ def panel_incsv() -> None:
 
     # Read data if working dir changed
     if st.session_state.plot_var["df_data"].shape[0] == 0:
-        st.session_state.plot_var["df_data"] = utildf.read_dataframe(
+        df_tmp = utildf.read_dataframe(
             st.session_state.paths["csv_plot"]
         )
+        st.session_state.plot_var["df_data"] = utildf.rename_rois(
+            df_tmp,
+            st.session_state.rois["roi_dict"]
+        )
         utilss.reset_plots()
         st.session_state.is_updated["csv_plot"] = False
 
@@ -119,9 +123,13 @@ def panel_incsv() -> None:
 
         # Read input csv
         if st.session_state.is_updated["csv_plot"]:
-            st.session_state.plot_var["df_data"] = utildf.read_dataframe(
+            df_tmp = utildf.read_dataframe(
                 st.session_state.paths["csv_plot"]
             )
+            st.session_state.plot_var["df_data"] = utildf.rename_rois(
+                df_tmp,
+                st.session_state.rois["roi_dict"]
+            )
             utilss.reset_plots()
             st.session_state.is_updated["csv_plot"] = False
 
@@ -195,6 +203,12 @@ def panel_rename() -> None:
             st.session_state.plot_var["df_data"] = df
             st.success("Variables are renamed!")
 
+        s_title="Rename Data Columns"
+        s_text="""
+        - If your data includes numeric columns
+        """
+        utilst.util_get_help(s_title, s_text)
+
 
 def panel_select() -> None:
     """

src/viewer/utils/utils_dataframe.py

@@ -19,8 +19,18 @@ def read_dataframe(fname: str) -> pd.DataFrame:
         df = df.rename(columns={'DLICV':'ICV', 'DLICV_centiles':'ICV_centiles'}) 
     except:
         df = pd.DataFrame()
+
     return df
 
+def rename_rois(df: pd.DataFrame, roi_dict: dict) -> pd.DataFrame:
+    df_out = df.rename(columns=roi_dict)
+
+    print(f'AAAA  {df_out.shape}')
+    duplicate_columns = df_out.columns.duplicated()==False
+    print(f'bbbAAAA  {df_out.columns.duplicated().sum()}')
+    df_out = df_out.loc[:, duplicate_columns]
+    return df_out
+
 
 def filter_dataframe(df: pd.DataFrame) -> pd.DataFrame:
     """