"""
Generic Tab 1: Results Display (All Data)
This module provides a unified interface for displaying benchmark results
across all ProteoBench module types (Quant, De Novo, etc.).
"""
import os
import uuid
from typing import Any, Callable, Dict, Optional
import pandas as pd
import streamlit as st
[docs]
def initialize_uuid_state(key: str, default_value: Any = None) -> None:
"""
Initialize a UUID-based state key with an optional default value.
Parameters
----------
key : str
The session state key to initialize.
default_value : Any, optional
The default value to associate with the generated UUID.
"""
if key not in st.session_state:
st.session_state[key] = uuid.uuid4()
if default_value is not None:
uuid_key = st.session_state[key]
if uuid_key not in st.session_state:
st.session_state[uuid_key] = default_value
[docs]
def initialize_main_data_points(variables, ionmodule: Callable) -> None:
"""
Initialize the all_datapoints variable in the session state.
Parameters
----------
variables : object
Variables object containing session state keys.
ionmodule : Callable
The module instance with obtain_all_data_points method.
"""
if variables.all_datapoints not in st.session_state:
st.session_state[variables.all_datapoints] = None
st.session_state[variables.all_datapoints] = ionmodule.obtain_all_data_points(
all_datapoints=st.session_state[variables.all_datapoints]
)
# UI Control Functions
[docs]
def initialize_main_slider(slider_id_uuid: str, default_val_slider: int) -> None:
"""Initialize the slider state with UUID and default value."""
initialize_uuid_state(slider_id_uuid, default_val_slider)
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def generate_main_slider(slider_id_uuid: str, description_slider_md: str, default_val_slider: float, max_nr_observed: int = 6) -> None:
"""
Create a slider input.
Parameters
----------
slider_id_uuid : str
UUID for the slider state key
description_slider_md : str
Path to markdown file with slider description
default_val_slider : float
Default value for the slider
max_nr_observed : int, optional
Maximum value for the slider range (default 6)
"""
# key for slider_uuid in session state
if slider_id_uuid not in st.session_state:
st.session_state[slider_id_uuid] = uuid.uuid4()
slider_key = st.session_state[slider_id_uuid]
default_value = st.session_state.get(slider_key, default_val_slider)
# Generate slider options based on max_nr_observed
slider_options = list(range(1, max_nr_observed + 1))
st.select_slider(
label="Minimal precursor quantifications (# samples)",
options=slider_options,
value=default_value,
key=slider_key,
help="Use the slider to set the minimum number of raw files in which a precursor must be quantified (e.g., 3 = ≥3 files).",
)
[docs]
def initialize_radio(radio_id_uuid: str, default_value: str) -> None:
"""Initialize radio button state with UUID and default value."""
initialize_uuid_state(radio_id_uuid, default_value)
[docs]
def generate_main_radio(radio_id_uuid: str, description: str, options: list, help: str = None) -> None:
"""Generate a radio button selector."""
radio_uuid = st.session_state[radio_id_uuid]
st.radio(description, options, key=radio_uuid, help=help)
[docs]
def initialize_main_selectbox(selectbox_id_uuid: str, default_value: str = "None") -> None:
"""Initialize the selectbox state with UUID and default value."""
initialize_uuid_state(selectbox_id_uuid, default_value)
[docs]
def generate_main_selectbox(variables, selectbox_id_uuid: str) -> None:
"""Generate the main selectbox for label selection."""
selectbox_uuid = st.session_state[selectbox_id_uuid]
# Get help text if available
help_text = getattr(variables.texts.Help, "selectbox", None) if hasattr(variables, "texts") else None
st.selectbox(
"Select label",
variables.metric_plot_labels,
key=selectbox_uuid,
help=help_text,
)
[docs]
def display_metric_selector(variables) -> str:
"""Display metric selector and return selected metric."""
help_text = getattr(variables.texts.Help, "radio_metric", None) if hasattr(variables, "texts") else None
metric = st.radio(
"Select metric",
["Median", "Mean"],
help=help_text,
horizontal=True,
)
return metric
[docs]
def display_metric_calc_approach_selector(variables) -> str:
"""Display metric calculation approach selector and return selected mode."""
help_text = getattr(variables.texts.Help, "radio_mode", None) if hasattr(variables, "texts") else None
mode = st.radio(
"Select metric calculation approach",
["Global", "Species-weighted"],
help=help_text,
horizontal=True,
)
return mode
[docs]
def display_colorblindmode_selector(variables, use_submitted: bool = False) -> str:
"""Display colorblind mode selector toggle.
Parameters
----------
variables : VariablesClass
Variables object containing selector UUIDs
use_submitted : bool, optional
If True, use the submitted selector UUID, by default False
Returns
-------
bool
Current state of the colorblind mode toggle
"""
key = variables.colorblind_mode_selector_submitted_uuid if use_submitted else variables.colorblind_mode_selector_uuid
if key not in st.session_state.keys():
st.session_state[key] = uuid.uuid4()
_id_of_key = st.session_state[key]
return st.toggle(
"Colorblind Mode",
help="Toggle colorblind mode on or off.",
key=_id_of_key,
)
[docs]
def filter_data_if_applicable(variables, ionmodule, use_slider: bool = True) -> pd.DataFrame:
"""
Filter data using module-specific filtering logic.
Parameters
----------
variables : object
Variables object containing session state keys.
ionmodule : object
The module instance with filter_data_point method.
use_slider : bool, optional
Whether to use slider-based filtering (Quant) or return all data (De Novo).
Returns
-------
pd.DataFrame
Filtered or unfiltered data points.
"""
if not use_slider or not hasattr(ionmodule, "filter_data_point"):
# No filtering for this module type
return st.session_state[variables.all_datapoints]
# Slider-based filtering (Quant modules)
if hasattr(variables, "slider_id_uuid"):
slider_key = st.session_state.get(variables.slider_id_uuid)
filter_value = st.session_state.get(slider_key, 3)
return ionmodule.filter_data_point(st.session_state[variables.all_datapoints], filter_value)
return st.session_state[variables.all_datapoints]
[docs]
def render_main_plot(plot_generator, data: pd.DataFrame, variables, plot_params: Dict[str, Any]) -> None:
"""
Render the main metric plot using the module's plot generator.
Parameters
----------
plot_generator : PlotGeneratorBase
The plot generator instance from the module.
data : pd.DataFrame
The data to plot.
variables : object
Variables object containing session state keys.
plot_params : Dict[str, Any]
Module-specific parameters for plotting (label, metric, mode, etc.).
"""
# Prepare plot key
key = variables.fig_metric if hasattr(variables, "fig_metric") else "main_plot"
if key not in st.session_state:
st.session_state[key] = uuid.uuid4()
plot_uuid = st.session_state[key]
# Build annotation text based on alpha/beta warnings
annotation = ""
if plot_params.get("beta_warning", False):
annotation = "-Beta-"
elif plot_params.get("alpha_warning", False):
annotation = "-Alpha-"
try:
fig = plot_generator.plot_main_metric(
result_df=data,
hide_annot=plot_params.get("hide_annot", False),
annotation=annotation,
**plot_params
)
st.plotly_chart(fig, use_container_width=True, key=plot_uuid)
except Exception as e:
st.error(f"Unable to plot the datapoints: {e}", icon="🚨")
import traceback
with st.expander("Error details"):
st.code(traceback.format_exc())
[docs]
def render_results_table(
data: pd.DataFrame, table_style: str = "dataframe", column_config: Optional[Dict] = None
) -> None:
"""
Render the results table with configurable styling.
Parameters
----------
data : pd.DataFrame
The data to display.
table_style : str, optional
The table rendering style ("dataframe" or "aggrid").
column_config : Optional[Dict], optional
Streamlit column configuration for enhanced display.
"""
if len(data) == 0:
st.info("No datapoints available to display.", icon="ℹ️")
return
st.subheader("Benchmark Results")
if table_style == "aggrid":
# Import AgGrid only if needed
try:
from st_aggrid import AgGrid, GridOptionsBuilder
gb = GridOptionsBuilder.from_dataframe(data)
gb.configure_default_column(
filterable=True,
groupable=False,
sorteable=True,
editable=False,
)
grid_options = gb.build()
AgGrid(data, gridOptions=grid_options, height=400, fit_columns_on_grid_load=True)
except ImportError:
st.warning("AgGrid not available, falling back to dataframe", icon="⚠️")
st.dataframe(data, use_container_width=True, hide_index=True, column_config=column_config)
else:
# Standard dataframe display
st.dataframe(data, use_container_width=True, hide_index=True, column_config=column_config)
[docs]
def display_download_section(variables, sort_by: str = "id") -> None:
"""
Render the download section for raw datasets.
Parameters
----------
variables : object
Variables object containing session state keys.
sort_by : str, optional
Column to sort the download options by.
"""
if len(st.session_state[variables.all_datapoints]) == 0:
st.error("No data available for download.", icon="🚨")
return
# Prepare downloads dataframe
downloads_df = st.session_state[variables.all_datapoints][["id", "intermediate_hash"]].copy()
downloads_df = downloads_df.sort_values(sort_by, ascending=False)
downloads_df.set_index("intermediate_hash", drop=False, inplace=True)
# Initialize UUID state
if (
not hasattr(variables, "placeholder_downloads_container")
or variables.placeholder_downloads_container not in st.session_state
):
if hasattr(variables, "placeholder_downloads_container"):
st.session_state[variables.placeholder_downloads_container] = st.empty()
if (
not hasattr(variables, "download_selector_id_uuid")
or variables.download_selector_id_uuid not in st.session_state
):
if hasattr(variables, "download_selector_id_uuid"):
st.session_state[variables.download_selector_id_uuid] = uuid.uuid4()
st.subheader("Download raw datasets")
# Create selectbox key
selector_key = st.session_state.get(
getattr(variables, "download_selector_id_uuid", "download_selector"), "download_selector"
)
selected_hash = st.selectbox(
"Select dataset (sorted by most recent)",
downloads_df["intermediate_hash"],
index=None,
key=selector_key,
format_func=lambda x: downloads_df["id"][x] if x in downloads_df.index else x,
)
# Handle file downloads
if selected_hash is not None and "storage" in st.secrets and st.secrets["storage"]["dir"] is not None:
dataset_path = os.path.join(st.secrets["storage"]["dir"], selected_hash)
if os.path.isdir(dataset_path):
files = os.listdir(dataset_path)
if files:
st.write(f"Available files for dataset `{downloads_df['id'][selected_hash]}`:")
for file_name in sorted(files):
path_to_file = os.path.join(dataset_path, file_name)
with open(path_to_file, "rb") as file:
st.download_button(
label=f"📥 {file_name}",
data=file,
file_name=file_name,
key=f"download_{selected_hash}_{file_name}",
)
else:
st.info("No files available in this dataset directory.", icon="ℹ️")
else:
st.warning(
f"Directory for dataset `{downloads_df['id'][selected_hash]}` does not exist. "
"This may indicate the data has not been uploaded or archived.",
icon="⚠️",
)
elif selected_hash is not None:
st.info("Storage directory is not configured. Set `storage.dir` in secrets.toml to enable downloads.", icon="ℹ️")
[docs]
def display_existing_results(
variables,
ionmodule,
plot_params: Dict[str, Any],
use_slider: bool = True,
table_style: str = "dataframe",
column_config: Optional[Dict] = None,
) -> None:
"""
Main orchestration function for displaying benchmark results.
This is the primary entry point for Tab 1, working across all module types.
Parameters
----------
variables : object
Variables object containing session state keys and configuration.
ionmodule : object
The module instance (Quant, De Novo, etc.).
plot_params : Dict[str, Any]
Module-specific plotting parameters (label, metric, level, etc.).
use_slider : bool, optional
Whether to use slider-based filtering (default True for Quant).
table_style : str, optional
Table rendering style ("dataframe" or "aggrid").
column_config : Optional[Dict], optional
Streamlit column configuration for dataframe display.
"""
# Initialize and filter data
initialize_main_data_points(variables, ionmodule)
filtered_data = filter_data_if_applicable(variables, ionmodule, use_slider)
# Get plot generator from module
plot_generator = ionmodule.get_plot_generator()
# Render main plot
render_main_plot(plot_generator, filtered_data, variables, plot_params)
# Render results table
render_results_table(filtered_data, table_style, column_config)
# Display download section
display_download_section(variables)
