Removed logger.debugs for proven functions.

src/submissions/frontend/visualizations/__init__.py

@@ -41,7 +41,6 @@ class CustomFigure(Figure):
         """
         if modes:
             ytitle = modes[0]
-        # logger.debug("Creating visibles list for each mode.")
         self.update_layout(
             xaxis_title="Submitted Date (* - Date parsed from fastq file creation date)",
             yaxis_title=ytitle,
@@ -79,7 +78,6 @@ class CustomFigure(Figure):
         rng = [1]
         if months > 2:
             rng += [iii for iii in range(3, months, 3)]
-        # logger.debug(f"Making buttons for months: {rng}")
         buttons = [dict(count=iii, label=f"{iii}m", step="month", stepmode="backward") for iii in rng]
         if months > date.today().month:
             buttons += [dict(count=1, label="YTD", step="year", stepmode="todate")]
@@ -117,24 +115,6 @@ class CustomFigure(Figure):
                     {"yaxis.title.text": mode},
                 ])
 
-    # def save_figure(self, group_name: str = "plotly_output", parent: QWidget | None = None):
-    #     """
-    #     Writes plotly figure to html file.
-    #
-    #     Args:
-    #         figs ():
-    #         settings (dict): settings passed down from click
-    #         fig (Figure): input figure object
-    #         group_name (str): controltype
-    #     """
-    #
-    #     output = select_save_file(obj=parent, default_name=group_name, extension="png")
-    #     self.write_image(output.absolute().__str__(), engine="kaleido")
-    #
-    # def save_data(self, group_name: str = "plotly_export", parent:QWidget|None=None):
-    #     output = select_save_file(obj=parent, default_name=group_name, extension="xlsx")
-    #     self.df.to_excel(output.absolute().__str__(), engine="openpyxl", index=False)
-
     def to_html(self) -> str:
         """
         Creates final html code from plotly

src/submissions/frontend/visualizations/irida_charts.py

@@ -3,13 +3,12 @@ Functions for constructing irida controls graphs using plotly.
 """
 from datetime import date
 from pprint import pformat
-from typing import Generator
 import plotly.express as px
 import pandas as pd
 from PyQt6.QtWidgets import QWidget
 from . import CustomFigure
 import logging
-from tools import get_unique_values_in_df_column, divide_chunks
+from tools import get_unique_values_in_df_column
 
 logger = logging.getLogger(f"submissions.{__name__}")
 

src/submissions/frontend/visualizations/pcr_charts.py

@@ -21,11 +21,9 @@ class PCRFigure(CustomFigure):
             months = int(settings['months'])
         except KeyError:
             months = 6
-        # logger.debug(f"DF: {self.df}")
         self.construct_chart(df=df)
 
     def construct_chart(self, df: pd.DataFrame):
-        # logger.debug(f"PCR df:\n {df}")
         try:
             scatter = px.scatter(data_frame=df, x='submitted_date', y="ct",
                                            hover_data=["name", "target", "ct", "reagent_lot"],

src/submissions/frontend/visualizations/turnaround_chart.py

@@ -23,7 +23,6 @@ class TurnaroundChart(CustomFigure):
             months = int(settings['months'])
         except KeyError:
             months = 6
-        # logger.debug(f"DF: {self.df}")
         self.construct_chart()
         if threshold:
             self.add_hline(y=threshold)
@@ -32,11 +31,9 @@ class TurnaroundChart(CustomFigure):
     def construct_chart(self, df: pd.DataFrame | None = None):
         if df:
             self.df = df
-        # logger.debug(f"PCR df:\n {df}")
         self.df = self.df[self.df.days.notnull()]
         self.df = self.df.sort_values(['submitted_date', 'name'], ascending=[True, True]).reset_index(drop=True)
         self.df = self.df.reset_index().rename(columns={"index": "idx"})
-        # logger.debug(f"DF: {self.df}")
         try:
             scatter = px.scatter(data_frame=self.df, x='idx', y="days",
                                  hover_data=["name", "submitted_date", "completed_date", "days"],