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Commit ·
2725f44
1
Parent(s): edbaaaf
format help string in data ingestion
Browse files- modules/DataLoading/DataIngestion.py +336 -24
- modules/Home/HomeContent.py +14 -14
- utils/sidebar.py +2 -0
- utils/strings.py +139 -8
modules/DataLoading/DataIngestion.py
CHANGED
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@@ -6,6 +6,7 @@ from stingray import Lightcurve
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import warnings
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import os
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import stat
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from bokeh.models import Tooltip
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from utils.globals import loaded_event_data
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from utils.DashboardClasses import (
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@@ -18,7 +19,7 @@ from utils.DashboardClasses import (
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Footer,
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)
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import param
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-
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# Path to the topmost directory for loaded-data
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loaded_data_path = os.path.join(os.getcwd(), "files", "loaded-data")
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@@ -26,6 +27,7 @@ loaded_data_path = os.path.join(os.getcwd(), "files", "loaded-data")
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# Create the loaded-data directory if it doesn't exist
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os.makedirs(loaded_data_path, exist_ok=True)
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# Custom warning handler
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class WarningHandler:
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def __init__(self):
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@@ -74,7 +76,11 @@ def load_event_data(
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warning_handler,
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):
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if not file_selector.value:
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-
output_box_container[:] = [
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return
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file_paths = file_selector.value
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@@ -100,14 +106,22 @@ def load_event_data(
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]
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)
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if len(formats) < len(file_paths):
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output_box_container[:] = [
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return
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try:
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loaded_files = []
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for file_path, file_name, file_format in zip(file_paths, filenames, formats):
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if any(file_name == event[0] for event in loaded_event_data):
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output_box_container[:] = [
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return
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event_list = EventList.read(file_path, file_format)
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@@ -115,13 +129,19 @@ def load_event_data(
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loaded_files.append(
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f"File '{file_path}' loaded successfully as '{file_name}' with format '{file_format}'."
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)
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output_box_container[:] = [
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if warning_handler.warnings:
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warning_box_container[:] = [
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else:
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warning_box_container[:] = [create_loadingdata_warning_box("No warnings.")]
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except Exception as e:
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output_box_container[:] = [
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# Clear the warnings after displaying them
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warning_handler.warnings.clear()
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@@ -137,7 +157,9 @@ def save_loaded_files(
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warning_handler,
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):
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if not loaded_event_data:
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output_box_container[:] = [
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return
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filenames = (
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@@ -155,13 +177,23 @@ def save_loaded_files(
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formats = ["hdf5" for _ in range(len(loaded_event_data))]
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if len(filenames) < len(loaded_event_data):
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output_box_container[:] = [
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return
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if len(filenames) != len(loaded_event_data):
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output_box_container[:] = [
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return
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if len(formats) < len(loaded_event_data):
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-
output_box_container[:] = [
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return
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saved_files = []
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@@ -172,7 +204,11 @@ def save_loaded_files(
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if os.path.exists(
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os.path.join(loaded_data_path, f"{file_name}.{file_format}")
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):
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output_box_container[:] = [
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return
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save_path = os.path.join(loaded_data_path, f"{file_name}.{file_format}")
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@@ -187,13 +223,19 @@ def save_loaded_files(
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f"File '{file_name}' saved successfully to '{save_path}'."
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)
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output_box_container[:] = [
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if warning_handler.warnings:
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warning_box_container[:] = [
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else:
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warning_box_container[:] = [
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except Exception as e:
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warning_box_container[:] = [
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# Clear the warnings after displaying them
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warning_handler.warnings.clear()
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@@ -207,7 +249,11 @@ def delete_selected_files(
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warning_handler,
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):
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if not file_selector.value:
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output_box_container[:] = [
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return
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file_paths = file_selector.value
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@@ -228,7 +274,9 @@ def delete_selected_files(
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deleted_files.append(f"An error occurred while deleting '{file_path}': {e}")
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output_box_container[:] = [create_loadingdata_output_box("\n".join(deleted_files))]
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if warning_handler.warnings:
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warning_box_container[:] = [
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else:
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warning_box_container[:] = [create_loadingdata_warning_box("No warnings.")]
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@@ -243,7 +291,9 @@ def preview_loaded_files(
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time_limit=10,
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):
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if not loaded_event_data:
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output_box_container[:] = [
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return
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preview_data = []
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@@ -257,12 +307,159 @@ def preview_loaded_files(
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warning_handler.warn(str(e), category=RuntimeWarning)
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if preview_data:
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output_box_container[:] = [
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else:
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-
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if warning_handler.warnings:
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warning_box_container[:] = [
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else:
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warning_box_container[:] = [create_loadingdata_warning_box("No warnings.")]
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@@ -393,13 +590,128 @@ def create_loading_tab(output_box_container, warning_box_container, warning_hand
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return tab_content
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def create_loadingdata_main_area(output_box, warning_box):
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warning_handler = create_warning_handler()
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tabs_content = {
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-
"
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output_box_container=output_box,
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warning_box_container=warning_box,
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warning_handler=warning_handler,
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-
)
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}
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return MainArea(tabs_content=tabs_content)
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import warnings
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import os
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import stat
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+
import numpy as np
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from bokeh.models import Tooltip
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from utils.globals import loaded_event_data
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from utils.DashboardClasses import (
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Footer,
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)
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import param
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+
from utils.strings import LOADING_DATA_HELP_BOX_STRING
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# Path to the topmost directory for loaded-data
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loaded_data_path = os.path.join(os.getcwd(), "files", "loaded-data")
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# Create the loaded-data directory if it doesn't exist
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os.makedirs(loaded_data_path, exist_ok=True)
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+
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# Custom warning handler
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class WarningHandler:
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def __init__(self):
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warning_handler,
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):
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if not file_selector.value:
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+
output_box_container[:] = [
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create_loadingdata_output_box(
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"No file selected. Please select a file to upload."
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)
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]
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return
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file_paths = file_selector.value
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]
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)
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if len(formats) < len(file_paths):
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+
output_box_container[:] = [
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+
create_loadingdata_output_box(
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"Please specify formats for all files or check the default format option."
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)
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+
]
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return
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try:
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loaded_files = []
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for file_path, file_name, file_format in zip(file_paths, filenames, formats):
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if any(file_name == event[0] for event in loaded_event_data):
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+
output_box_container[:] = [
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+
create_loadingdata_output_box(
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f"A file with the name '{file_name}' already exists in memory. Please provide a different name."
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)
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]
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return
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event_list = EventList.read(file_path, file_format)
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loaded_files.append(
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f"File '{file_path}' loaded successfully as '{file_name}' with format '{file_format}'."
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)
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+
output_box_container[:] = [
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+
create_loadingdata_output_box("\n".join(loaded_files))
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]
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if warning_handler.warnings:
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warning_box_container[:] = [
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+
create_loadingdata_warning_box("\n".join(warning_handler.warnings))
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]
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else:
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warning_box_container[:] = [create_loadingdata_warning_box("No warnings.")]
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except Exception as e:
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+
output_box_container[:] = [
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+
create_loadingdata_output_box(f"An error occurred: {e}")
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]
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# Clear the warnings after displaying them
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warning_handler.warnings.clear()
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warning_handler,
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):
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if not loaded_event_data:
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+
output_box_container[:] = [
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+
create_loadingdata_output_box("No files loaded to save.")
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]
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return
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filenames = (
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formats = ["hdf5" for _ in range(len(loaded_event_data))]
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if len(filenames) < len(loaded_event_data):
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+
output_box_container[:] = [
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+
create_loadingdata_output_box("Please specify names for all loaded files.")
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]
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return
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if len(filenames) != len(loaded_event_data):
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+
output_box_container[:] = [
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+
create_loadingdata_output_box(
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"Please ensure that the number of names matches the number of loaded files."
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+
)
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+
]
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return
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if len(formats) < len(loaded_event_data):
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+
output_box_container[:] = [
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+
create_loadingdata_output_box(
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+
"Please specify formats for all loaded files or check the default format option."
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+
)
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+
]
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return
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saved_files = []
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if os.path.exists(
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os.path.join(loaded_data_path, f"{file_name}.{file_format}")
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):
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+
output_box_container[:] = [
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+
create_loadingdata_output_box(
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+
f"A file with the name '{file_name}' already exists. Please provide a different name."
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+
)
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+
]
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return
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save_path = os.path.join(loaded_data_path, f"{file_name}.{file_format}")
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f"File '{file_name}' saved successfully to '{save_path}'."
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)
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+
output_box_container[:] = [
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+
create_loadingdata_output_box("\n".join(saved_files))
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+
]
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if warning_handler.warnings:
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+
warning_box_container[:] = [
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+
create_loadingdata_warning_box("\n".join(warning_handler.warnings))
|
| 232 |
+
]
|
| 233 |
else:
|
| 234 |
+
warning_box_container[:] = [create_loadingdata_warning_box("No warnings.")]
|
| 235 |
except Exception as e:
|
| 236 |
+
warning_box_container[:] = [
|
| 237 |
+
create_loadingdata_warning_box(f"An error occurred while saving files: {e}")
|
| 238 |
+
]
|
| 239 |
|
| 240 |
# Clear the warnings after displaying them
|
| 241 |
warning_handler.warnings.clear()
|
|
|
|
| 249 |
warning_handler,
|
| 250 |
):
|
| 251 |
if not file_selector.value:
|
| 252 |
+
output_box_container[:] = [
|
| 253 |
+
create_loadingdata_output_box(
|
| 254 |
+
"No file selected. Please select a file to delete."
|
| 255 |
+
)
|
| 256 |
+
]
|
| 257 |
return
|
| 258 |
|
| 259 |
file_paths = file_selector.value
|
|
|
|
| 274 |
deleted_files.append(f"An error occurred while deleting '{file_path}': {e}")
|
| 275 |
output_box_container[:] = [create_loadingdata_output_box("\n".join(deleted_files))]
|
| 276 |
if warning_handler.warnings:
|
| 277 |
+
warning_box_container[:] = [
|
| 278 |
+
create_loadingdata_warning_box("\n".join(warning_handler.warnings))
|
| 279 |
+
]
|
| 280 |
else:
|
| 281 |
warning_box_container[:] = [create_loadingdata_warning_box("No warnings.")]
|
| 282 |
|
|
|
|
| 291 |
time_limit=10,
|
| 292 |
):
|
| 293 |
if not loaded_event_data:
|
| 294 |
+
output_box_container[:] = [
|
| 295 |
+
create_loadingdata_output_box("No files loaded to preview.")
|
| 296 |
+
]
|
| 297 |
return
|
| 298 |
|
| 299 |
preview_data = []
|
|
|
|
| 307 |
warning_handler.warn(str(e), category=RuntimeWarning)
|
| 308 |
|
| 309 |
if preview_data:
|
| 310 |
+
output_box_container[:] = [
|
| 311 |
+
create_loadingdata_output_box("\n\n".join(preview_data))
|
| 312 |
+
]
|
| 313 |
+
else:
|
| 314 |
+
output_box_container[:] = [
|
| 315 |
+
create_loadingdata_output_box("No valid files loaded for preview.")
|
| 316 |
+
]
|
| 317 |
+
|
| 318 |
+
if warning_handler.warnings:
|
| 319 |
+
warning_box_container[:] = [
|
| 320 |
+
create_loadingdata_warning_box("\n".join(warning_handler.warnings))
|
| 321 |
+
]
|
| 322 |
+
else:
|
| 323 |
+
warning_box_container[:] = [create_loadingdata_warning_box("No warnings.")]
|
| 324 |
+
|
| 325 |
+
warning_handler.warnings.clear()
|
| 326 |
+
|
| 327 |
+
|
| 328 |
+
def create_event_list(
|
| 329 |
+
event,
|
| 330 |
+
times_input,
|
| 331 |
+
energy_input,
|
| 332 |
+
gti_input,
|
| 333 |
+
mjdref_input,
|
| 334 |
+
name_input,
|
| 335 |
+
output_box_container,
|
| 336 |
+
warning_box_container,
|
| 337 |
+
warning_handler,
|
| 338 |
+
):
|
| 339 |
+
# Clear previous warnings
|
| 340 |
+
warning_handler.warnings.clear()
|
| 341 |
+
warnings.resetwarnings()
|
| 342 |
+
|
| 343 |
+
try:
|
| 344 |
+
if not times_input.value or not mjdref_input.value:
|
| 345 |
+
output_box_container[:] = [
|
| 346 |
+
create_loadingdata_output_box(
|
| 347 |
+
"Please enter Photon Arrival Times and MJDREF."
|
| 348 |
+
)
|
| 349 |
+
]
|
| 350 |
+
return
|
| 351 |
+
|
| 352 |
+
times = [float(t) for t in times_input.value.split(",")]
|
| 353 |
+
mjdref = float(mjdref_input.value)
|
| 354 |
+
energy = (
|
| 355 |
+
[float(e) for e in energy_input.value.split(",")]
|
| 356 |
+
if energy_input.value
|
| 357 |
+
else None
|
| 358 |
+
)
|
| 359 |
+
gti = (
|
| 360 |
+
[
|
| 361 |
+
[float(g) for g in interval.split()]
|
| 362 |
+
for interval in gti_input.value.split(";")
|
| 363 |
+
]
|
| 364 |
+
if gti_input.value
|
| 365 |
+
else None
|
| 366 |
+
)
|
| 367 |
+
|
| 368 |
+
if name_input.value:
|
| 369 |
+
name = name_input.value
|
| 370 |
+
if any(name == event[0] for event in loaded_event_data):
|
| 371 |
+
output_box_container[:] = [
|
| 372 |
+
create_loadingdata_output_box(
|
| 373 |
+
f"A file with the name '{name}' already exists in memory. Please provide a different name."
|
| 374 |
+
)
|
| 375 |
+
]
|
| 376 |
+
return
|
| 377 |
+
else:
|
| 378 |
+
name = f"event_list_{len(loaded_event_data)}"
|
| 379 |
+
|
| 380 |
+
event_list = EventList(times, energy=energy, gti=gti, mjdref=mjdref)
|
| 381 |
+
|
| 382 |
+
loaded_event_data.append((name, event_list))
|
| 383 |
+
|
| 384 |
+
output_box_container[:] = [
|
| 385 |
+
create_loadingdata_output_box(
|
| 386 |
+
f"Event List created successfully!\nSaved as: {name}\nTimes: {event_list.time}\nMJDREF: {event_list.mjdref}\nGTI: {event_list.gti}\nEnergy: {event_list.energy if energy else 'Not provided'}"
|
| 387 |
+
)
|
| 388 |
+
]
|
| 389 |
+
except ValueError as ve:
|
| 390 |
+
warning_handler.warn(str(ve), category=ValueError)
|
| 391 |
+
except Exception as e:
|
| 392 |
+
warning_handler.warn(str(e), category=RuntimeError)
|
| 393 |
+
|
| 394 |
+
if warning_handler.warnings:
|
| 395 |
+
warning_box_container[:] = [
|
| 396 |
+
create_loadingdata_warning_box("\n".join(warning_handler.warnings))
|
| 397 |
+
]
|
| 398 |
else:
|
| 399 |
+
warning_box_container[:] = [create_loadingdata_warning_box("No warnings.")]
|
| 400 |
+
|
| 401 |
+
warning_handler.warnings.clear()
|
| 402 |
+
|
| 403 |
+
|
| 404 |
+
def simulate_event_list(
|
| 405 |
+
event,
|
| 406 |
+
time_slider,
|
| 407 |
+
count_slider,
|
| 408 |
+
dt_input,
|
| 409 |
+
name_input,
|
| 410 |
+
method_selector,
|
| 411 |
+
output_box_container,
|
| 412 |
+
warning_box_container,
|
| 413 |
+
warning_handler,
|
| 414 |
+
):
|
| 415 |
+
# Clear previous warnings
|
| 416 |
+
warning_handler.warnings.clear()
|
| 417 |
+
warnings.resetwarnings()
|
| 418 |
+
|
| 419 |
+
try:
|
| 420 |
+
if not name_input.value:
|
| 421 |
+
output_box_container[:] = [
|
| 422 |
+
create_loadingdata_output_box(
|
| 423 |
+
"Please provide a name for the simulated event list."
|
| 424 |
+
)
|
| 425 |
+
]
|
| 426 |
+
return
|
| 427 |
+
|
| 428 |
+
if any(name_input.value == event[0] for event in loaded_event_data):
|
| 429 |
+
output_box_container[:] = [
|
| 430 |
+
create_loadingdata_output_box(
|
| 431 |
+
f"A file with the name '{name_input.value}' already exists in memory. Please provide a different name."
|
| 432 |
+
)
|
| 433 |
+
]
|
| 434 |
+
return
|
| 435 |
+
|
| 436 |
+
times = np.arange(time_slider.value)
|
| 437 |
+
counts = np.floor(np.random.rand(time_slider.value) * count_slider.value)
|
| 438 |
+
dt = dt_input.value
|
| 439 |
+
lc = Lightcurve(times, counts, dt=dt, skip_checks=True)
|
| 440 |
+
|
| 441 |
+
if method_selector.value == "Standard Method":
|
| 442 |
+
event_list = EventList.from_lc(lc)
|
| 443 |
+
else:
|
| 444 |
+
event_list = EventList()
|
| 445 |
+
event_list.simulate_times(lc)
|
| 446 |
+
|
| 447 |
+
name = name_input.value
|
| 448 |
+
loaded_event_data.append((name, event_list))
|
| 449 |
+
|
| 450 |
+
output_box_container[:] = [
|
| 451 |
+
create_loadingdata_output_box(
|
| 452 |
+
f"Event List simulated successfully!\nSaved as: {name}\nTimes: {event_list.time}\nCounts: {counts}"
|
| 453 |
+
)
|
| 454 |
+
]
|
| 455 |
+
|
| 456 |
+
except Exception as e:
|
| 457 |
+
warning_handler.warn(str(e), category=RuntimeError)
|
| 458 |
|
| 459 |
if warning_handler.warnings:
|
| 460 |
+
warning_box_container[:] = [
|
| 461 |
+
create_loadingdata_warning_box("\n".join(warning_handler.warnings))
|
| 462 |
+
]
|
| 463 |
else:
|
| 464 |
warning_box_container[:] = [create_loadingdata_warning_box("No warnings.")]
|
| 465 |
|
|
|
|
| 590 |
return tab_content
|
| 591 |
|
| 592 |
|
| 593 |
+
def create_event_list_tab(output_box_container, warning_box_container, warning_handler):
|
| 594 |
+
output = pn.widgets.TextAreaInput(
|
| 595 |
+
name="Output", value="", disabled=True, height=200
|
| 596 |
+
)
|
| 597 |
+
warning_output = pn.widgets.TextAreaInput(
|
| 598 |
+
name="Warnings", value="", disabled=True, height=200
|
| 599 |
+
)
|
| 600 |
+
|
| 601 |
+
times_input = pn.widgets.TextInput(
|
| 602 |
+
name="Photon Arrival Times", placeholder="e.g., 0.5, 1.1, 2.2, 3.7"
|
| 603 |
+
)
|
| 604 |
+
mjdref_input = pn.widgets.TextInput(name="MJDREF", placeholder="e.g., 58000.")
|
| 605 |
+
energy_input = pn.widgets.TextInput(
|
| 606 |
+
name="Energy (optional)", placeholder="e.g., 0., 3., 4., 20."
|
| 607 |
+
)
|
| 608 |
+
gti_input = pn.widgets.TextInput(
|
| 609 |
+
name="GTIs (optional)", placeholder="e.g., 0 4; 5 10"
|
| 610 |
+
)
|
| 611 |
+
name_input = pn.widgets.TextInput(
|
| 612 |
+
name="Event List Name", placeholder="e.g., my_event_list"
|
| 613 |
+
)
|
| 614 |
+
create_button = pn.widgets.Button(name="Create Event List", button_type="primary")
|
| 615 |
+
|
| 616 |
+
create_button.on_click(
|
| 617 |
+
lambda event: create_event_list(
|
| 618 |
+
event,
|
| 619 |
+
times_input,
|
| 620 |
+
energy_input,
|
| 621 |
+
gti_input,
|
| 622 |
+
mjdref_input,
|
| 623 |
+
name_input,
|
| 624 |
+
output_box_container,
|
| 625 |
+
warning_box_container,
|
| 626 |
+
warning_handler,
|
| 627 |
+
)
|
| 628 |
+
)
|
| 629 |
+
|
| 630 |
+
tab_content = pn.Column(
|
| 631 |
+
pn.pane.Markdown("# Create Event List"),
|
| 632 |
+
times_input,
|
| 633 |
+
mjdref_input,
|
| 634 |
+
energy_input,
|
| 635 |
+
gti_input,
|
| 636 |
+
name_input,
|
| 637 |
+
create_button,
|
| 638 |
+
)
|
| 639 |
+
return tab_content
|
| 640 |
+
|
| 641 |
+
|
| 642 |
+
def create_simulate_event_list_tab(
|
| 643 |
+
output_box_container, warning_box_container, warning_handler
|
| 644 |
+
):
|
| 645 |
+
|
| 646 |
+
simulation_title = pn.pane.Markdown("# Simulating Event Lists")
|
| 647 |
+
time_slider = pn.widgets.IntSlider(
|
| 648 |
+
name="Number of Time Bins", start=1, end=10000, value=10
|
| 649 |
+
)
|
| 650 |
+
count_slider = pn.widgets.IntSlider(
|
| 651 |
+
name="Max Counts per Bin", start=1, end=10000, value=5
|
| 652 |
+
)
|
| 653 |
+
dt_input = pn.widgets.FloatSlider(
|
| 654 |
+
name="Delta Time (dt)", start=0.0001, end=10000.0, step=0.001, value=1.0
|
| 655 |
+
)
|
| 656 |
+
method_selector = pn.widgets.Select(
|
| 657 |
+
name="Method", options=["Standard Method", "Inverse CDF Method"]
|
| 658 |
+
)
|
| 659 |
+
sim_name_input = pn.widgets.TextInput(
|
| 660 |
+
name="Simulated Event List Name", placeholder="e.g., my_sim_event_list"
|
| 661 |
+
)
|
| 662 |
+
simulate_button = pn.widgets.Button(
|
| 663 |
+
name="Simulate Event List", button_type="primary"
|
| 664 |
+
)
|
| 665 |
+
|
| 666 |
+
simulate_button.on_click(
|
| 667 |
+
lambda event: simulate_event_list(
|
| 668 |
+
event,
|
| 669 |
+
time_slider,
|
| 670 |
+
count_slider,
|
| 671 |
+
dt_input,
|
| 672 |
+
sim_name_input,
|
| 673 |
+
method_selector,
|
| 674 |
+
output_box_container,
|
| 675 |
+
warning_box_container,
|
| 676 |
+
warning_handler,
|
| 677 |
+
)
|
| 678 |
+
)
|
| 679 |
+
|
| 680 |
+
tab_content = pn.Column(
|
| 681 |
+
simulation_title,
|
| 682 |
+
time_slider,
|
| 683 |
+
count_slider,
|
| 684 |
+
dt_input,
|
| 685 |
+
method_selector,
|
| 686 |
+
sim_name_input,
|
| 687 |
+
simulate_button,
|
| 688 |
+
)
|
| 689 |
+
return tab_content
|
| 690 |
+
|
| 691 |
+
|
| 692 |
def create_loadingdata_main_area(output_box, warning_box):
|
| 693 |
warning_handler = create_warning_handler()
|
| 694 |
tabs_content = {
|
| 695 |
+
"Load Event List": create_loading_tab(
|
| 696 |
output_box_container=output_box,
|
| 697 |
warning_box_container=warning_box,
|
| 698 |
warning_handler=warning_handler,
|
| 699 |
+
),
|
| 700 |
+
"Create Event List": create_event_list_tab(
|
| 701 |
+
output_box_container=output_box,
|
| 702 |
+
warning_box_container=warning_box,
|
| 703 |
+
warning_handler=warning_handler,
|
| 704 |
+
),
|
| 705 |
+
"Simulate Event List": create_simulate_event_list_tab(
|
| 706 |
+
output_box_container=output_box,
|
| 707 |
+
warning_box_container=warning_box,
|
| 708 |
+
warning_handler=warning_handler,
|
| 709 |
+
),
|
| 710 |
}
|
| 711 |
return MainArea(tabs_content=tabs_content)
|
| 712 |
+
|
| 713 |
+
|
| 714 |
+
def create_loadingdata_help_area():
|
| 715 |
+
help_content = LOADING_DATA_HELP_BOX_STRING
|
| 716 |
+
return HelpBox(help_content=help_content, title="Help Section")
|
| 717 |
+
|
modules/Home/HomeContent.py
CHANGED
|
@@ -10,14 +10,14 @@ from utils.DashboardClasses import (
|
|
| 10 |
)
|
| 11 |
from utils.strings import (
|
| 12 |
HOME_HEADER_STRING,
|
| 13 |
-
|
| 14 |
-
|
| 15 |
-
|
| 16 |
-
|
| 17 |
-
|
| 18 |
-
|
| 19 |
-
|
| 20 |
-
|
| 21 |
)
|
| 22 |
|
| 23 |
""" Header Section """
|
|
@@ -33,9 +33,9 @@ def create_home_header():
|
|
| 33 |
|
| 34 |
""" Main Area Section """
|
| 35 |
def create_home_main_area():
|
| 36 |
-
tab1_content = pn.pane.Markdown(
|
| 37 |
-
tab2_content = pn.pane.Markdown(
|
| 38 |
-
tab3_content = pn.pane.Markdown(
|
| 39 |
|
| 40 |
tabs_content = {
|
| 41 |
"What's Stingray?": tab1_content,
|
|
@@ -47,11 +47,11 @@ def create_home_main_area():
|
|
| 47 |
|
| 48 |
""" Output Box Section """
|
| 49 |
def create_home_output_box():
|
| 50 |
-
return OutputBox(output_content=
|
| 51 |
|
| 52 |
""" Warning Box Section """
|
| 53 |
def create_home_warning_box():
|
| 54 |
-
return WarningBox(warning_content=
|
| 55 |
|
| 56 |
""" Plots Area Section """
|
| 57 |
def create_home_plots_area():
|
|
@@ -69,7 +69,7 @@ def create_home_plots_area():
|
|
| 69 |
|
| 70 |
""" Help Area Section """
|
| 71 |
def create_home_help_area():
|
| 72 |
-
help_content =
|
| 73 |
return HelpBox(help_content=help_content, title="Help Section")
|
| 74 |
|
| 75 |
""" Footer Section """
|
|
|
|
| 10 |
)
|
| 11 |
from utils.strings import (
|
| 12 |
HOME_HEADER_STRING,
|
| 13 |
+
HOME_WELCOME_MESSAGE_STRING,
|
| 14 |
+
HOME_FOOTER_STRING,
|
| 15 |
+
HOME_STINGRAY_TAB_STRING,
|
| 16 |
+
HOME_HOLOVIZ_TAB_STRING,
|
| 17 |
+
HOME_DASHBOARD_TAB_STRING,
|
| 18 |
+
HOME_OUTPUT_BOX_STRING,
|
| 19 |
+
HOME_WARNING_BOX_STRING,
|
| 20 |
+
HOME_HELP_BOX_STRING,
|
| 21 |
)
|
| 22 |
|
| 23 |
""" Header Section """
|
|
|
|
| 33 |
|
| 34 |
""" Main Area Section """
|
| 35 |
def create_home_main_area():
|
| 36 |
+
tab1_content = pn.pane.Markdown(HOME_STINGRAY_TAB_STRING)
|
| 37 |
+
tab2_content = pn.pane.Markdown(HOME_HOLOVIZ_TAB_STRING)
|
| 38 |
+
tab3_content = pn.pane.Markdown(HOME_DASHBOARD_TAB_STRING)
|
| 39 |
|
| 40 |
tabs_content = {
|
| 41 |
"What's Stingray?": tab1_content,
|
|
|
|
| 47 |
|
| 48 |
""" Output Box Section """
|
| 49 |
def create_home_output_box():
|
| 50 |
+
return OutputBox(output_content=HOME_OUTPUT_BOX_STRING)
|
| 51 |
|
| 52 |
""" Warning Box Section """
|
| 53 |
def create_home_warning_box():
|
| 54 |
+
return WarningBox(warning_content=HOME_WARNING_BOX_STRING)
|
| 55 |
|
| 56 |
""" Plots Area Section """
|
| 57 |
def create_home_plots_area():
|
|
|
|
| 69 |
|
| 70 |
""" Help Area Section """
|
| 71 |
def create_home_help_area():
|
| 72 |
+
help_content = HOME_HELP_BOX_STRING
|
| 73 |
return HelpBox(help_content=help_content, title="Help Section")
|
| 74 |
|
| 75 |
""" Footer Section """
|
utils/sidebar.py
CHANGED
|
@@ -15,6 +15,7 @@ from modules.DataLoading.DataIngestion import (
|
|
| 15 |
create_loadingdata_main_area,
|
| 16 |
create_loadingdata_output_box,
|
| 17 |
create_loadingdata_warning_box,
|
|
|
|
| 18 |
)
|
| 19 |
from modules.QuickLook.LightCurve import create_quicklook_lightcurve_header
|
| 20 |
from assets.icons.svg import HOME_ICON_SVG, LOAD_DATA_ICON_SVG
|
|
@@ -71,6 +72,7 @@ def create_sidebar(main_area, header, footer, output_box, warning_box, help_box)
|
|
| 71 |
main_area[:] = [create_loadingdata_main_area(output_box, warning_box)]
|
| 72 |
output_box[:] = [create_home_output_box()]
|
| 73 |
warning_box[:] = [create_home_warning_box()]
|
|
|
|
| 74 |
|
| 75 |
load_data_button.on_click(load_data)
|
| 76 |
|
|
|
|
| 15 |
create_loadingdata_main_area,
|
| 16 |
create_loadingdata_output_box,
|
| 17 |
create_loadingdata_warning_box,
|
| 18 |
+
create_loadingdata_help_area,
|
| 19 |
)
|
| 20 |
from modules.QuickLook.LightCurve import create_quicklook_lightcurve_header
|
| 21 |
from assets.icons.svg import HOME_ICON_SVG, LOAD_DATA_ICON_SVG
|
|
|
|
| 72 |
main_area[:] = [create_loadingdata_main_area(output_box, warning_box)]
|
| 73 |
output_box[:] = [create_home_output_box()]
|
| 74 |
warning_box[:] = [create_home_warning_box()]
|
| 75 |
+
help_box[:] = [create_loadingdata_help_area()]
|
| 76 |
|
| 77 |
load_data_button.on_click(load_data)
|
| 78 |
|
utils/strings.py
CHANGED
|
@@ -4,7 +4,7 @@ HOME_HEADER_STRING = """
|
|
| 4 |
<h1>Welcome to the Stingray Explorer Dashboard</h1>
|
| 5 |
"""
|
| 6 |
|
| 7 |
-
|
| 8 |
<div>
|
| 9 |
<p>This dashboard is designed to provide a comprehensive toolset for X-ray astronomy data analysis. Here are the main features:</p>
|
| 10 |
<ul>
|
|
@@ -63,7 +63,7 @@ WELCOME_MESSAGE_STRING = """
|
|
| 63 |
</div>
|
| 64 |
"""
|
| 65 |
|
| 66 |
-
|
| 67 |
<div>
|
| 68 |
<p>Stingray Explorer Dashboard</p>
|
| 69 |
<p>© 2021 Kartik Mandar</p>
|
|
@@ -73,7 +73,7 @@ FOOTER_STRING = """
|
|
| 73 |
|
| 74 |
# Tabs in Main Area of Home Page
|
| 75 |
|
| 76 |
-
|
| 77 |
<h2> Stingray: Next-Generation Spectral Timing </h2>
|
| 78 |
|
| 79 |

|
|
@@ -130,7 +130,7 @@ Windows uses an internal 32-bit representation for int. This might create numeri
|
|
| 130 |
<br></br>
|
| 131 |
"""
|
| 132 |
|
| 133 |
-
|
| 134 |
<h2> High-level tools to simplify visualization in Python </h2>
|
| 135 |
|
| 136 |

|
|
@@ -185,7 +185,7 @@ HoloViz tools provide extensive support for Jupyter notebooks, as well as for st
|
|
| 185 |
<br/>
|
| 186 |
"""
|
| 187 |
|
| 188 |
-
|
| 189 |
<h2> Stingray Explorer </h2>
|
| 190 |
|
| 191 |

|
|
@@ -195,18 +195,149 @@ This dashboard is designed to provide a comprehensive toolset for X-ray astronom
|
|
| 195 |
<br/>
|
| 196 |
"""
|
| 197 |
|
| 198 |
-
|
| 199 |
This is the output container. It will display the output of the analysis tools.
|
| 200 |
It may contain what EventLists are made, what lightcurves are generated, what power spectra are calculated, etc. It can also be used to preview the loaded EventList.
|
| 201 |
"""
|
| 202 |
|
| 203 |
|
| 204 |
-
|
| 205 |
This is the warning container. It will display any warnings or errors that occur during the analysis process.
|
| 206 |
"""
|
| 207 |
|
| 208 |
-
|
| 209 |
This is the helpbox container. It will display any help or documentation for the analysis tools.
|
| 210 |
It will also have links to the documentation and tutorials for the tools.
|
| 211 |
And have a brief description of the physics behind the analysis.
|
| 212 |
"""
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 4 |
<h1>Welcome to the Stingray Explorer Dashboard</h1>
|
| 5 |
"""
|
| 6 |
|
| 7 |
+
HOME_WELCOME_MESSAGE_STRING = """
|
| 8 |
<div>
|
| 9 |
<p>This dashboard is designed to provide a comprehensive toolset for X-ray astronomy data analysis. Here are the main features:</p>
|
| 10 |
<ul>
|
|
|
|
| 63 |
</div>
|
| 64 |
"""
|
| 65 |
|
| 66 |
+
HOME_FOOTER_STRING = """
|
| 67 |
<div>
|
| 68 |
<p>Stingray Explorer Dashboard</p>
|
| 69 |
<p>© 2021 Kartik Mandar</p>
|
|
|
|
| 73 |
|
| 74 |
# Tabs in Main Area of Home Page
|
| 75 |
|
| 76 |
+
HOME_STINGRAY_TAB_STRING = """
|
| 77 |
<h2> Stingray: Next-Generation Spectral Timing </h2>
|
| 78 |
|
| 79 |

|
|
|
|
| 130 |
<br></br>
|
| 131 |
"""
|
| 132 |
|
| 133 |
+
HOME_HOLOVIZ_TAB_STRING = """
|
| 134 |
<h2> High-level tools to simplify visualization in Python </h2>
|
| 135 |
|
| 136 |

|
|
|
|
| 185 |
<br/>
|
| 186 |
"""
|
| 187 |
|
| 188 |
+
HOME_DASHBOARD_TAB_STRING = """
|
| 189 |
<h2> Stingray Explorer </h2>
|
| 190 |
|
| 191 |

|
|
|
|
| 195 |
<br/>
|
| 196 |
"""
|
| 197 |
|
| 198 |
+
HOME_OUTPUT_BOX_STRING = """
|
| 199 |
This is the output container. It will display the output of the analysis tools.
|
| 200 |
It may contain what EventLists are made, what lightcurves are generated, what power spectra are calculated, etc. It can also be used to preview the loaded EventList.
|
| 201 |
"""
|
| 202 |
|
| 203 |
|
| 204 |
+
HOME_WARNING_BOX_STRING = """
|
| 205 |
This is the warning container. It will display any warnings or errors that occur during the analysis process.
|
| 206 |
"""
|
| 207 |
|
| 208 |
+
HOME_HELP_BOX_STRING = """
|
| 209 |
This is the helpbox container. It will display any help or documentation for the analysis tools.
|
| 210 |
It will also have links to the documentation and tutorials for the tools.
|
| 211 |
And have a brief description of the physics behind the analysis.
|
| 212 |
"""
|
| 213 |
+
|
| 214 |
+
|
| 215 |
+
# This section contains strings used in the DataIngestion.py
|
| 216 |
+
|
| 217 |
+
LOADING_DATA_HELP_BOX_STRING = """
|
| 218 |
+
<h2> Loading Tab </h2>
|
| 219 |
+
|
| 220 |
+
### Functionality
|
| 221 |
+
The "Loading" tab allows you to load, save, delete, and preview event data files. Here is a detailed explanation of each component and its functionality:
|
| 222 |
+
|
| 223 |
+
- **File Selector**: Select files to load into the event data list.
|
| 224 |
+
- **Enter File Names**: Specify custom names for the loaded files. If left blank, the names will be derived from the file paths.
|
| 225 |
+
- **Enter Formats**: Specify the formats of the files being loaded. If left blank, the default format is used.
|
| 226 |
+
- **Use default format**: Check this to use the default format ('ogip' for loading and 'hdf5' for saving).
|
| 227 |
+
- **Load Event Data**: Load the selected files into the event data list.
|
| 228 |
+
- **Save Loaded Data**: Save the loaded event data files to the specified directory.
|
| 229 |
+
- **Delete Selected Files**: Delete the selected files from the file system.
|
| 230 |
+
- **Preview Loaded Files**: Preview the contents of the loaded event data files.
|
| 231 |
+
|
| 232 |
+
### Precautions
|
| 233 |
+
- Ensure the file contains at least a 'time' column when loading event data.
|
| 234 |
+
- When specifying custom names or formats, ensure that the number of names/formats matches the number of files selected.
|
| 235 |
+
- Deleting files with the ".py" extension is not allowed to prevent accidental deletion of script files.
|
| 236 |
+
|
| 237 |
+
### Examples
|
| 238 |
+
#### Loading an Event List
|
| 239 |
+
```python
|
| 240 |
+
from stingray import EventList
|
| 241 |
+
ev = EventList.read('events.fits', 'ogip')
|
| 242 |
+
print(ev.time)
|
| 243 |
+
```
|
| 244 |
+
|
| 245 |
+
### Saving an Event List
|
| 246 |
+
```python
|
| 247 |
+
ev.write("events.hdf5", "hdf5")
|
| 248 |
+
```
|
| 249 |
+
|
| 250 |
+
## Creation Tab
|
| 251 |
+
|
| 252 |
+
### Functionality
|
| 253 |
+
|
| 254 |
+
The "Creation" tab allows you to create new event lists or simulate event lists from light curves. Here is a detailed explanation of each component and its functionality:
|
| 255 |
+
|
| 256 |
+
- **Photon Arrival Times**: Enter photon arrival times in seconds from a reference MJD.
|
| 257 |
+
- **MJDREF**: Enter the MJD reference for the photon arrival times.
|
| 258 |
+
- **Energy (optional)**: Enter the energy values associated with the photons.
|
| 259 |
+
- **GTIs (optional)**: Enter the Good Time Intervals (GTIs) for the event list.
|
| 260 |
+
- **Event List Name**: Specify a name for the new event list.
|
| 261 |
+
- **Create Event List**: Create a new event list with the specified parameters.
|
| 262 |
+
|
| 263 |
+
### Simulation of Event Lists
|
| 264 |
+
|
| 265 |
+
- **Number of Time Bins**: Specify the number of time bins for the simulation.
|
| 266 |
+
- **Max Counts per Bin**: Specify the maximum counts per bin.
|
| 267 |
+
- **Delta Time (dt)**: Specify the delta time for the light curve.
|
| 268 |
+
- **Method**: Choose between "Standard Method" and "Inverse CDF Method" for simulating event lists.
|
| 269 |
+
- **Simulated Event List Name**: Specify a name for the simulated event list.
|
| 270 |
+
- **Simulate Event List**: Simulate an event list using the specified parameters.
|
| 271 |
+
|
| 272 |
+
### Precautions
|
| 273 |
+
|
| 274 |
+
- Ensure that photon arrival times and MJDREF are provided when creating an event list.
|
| 275 |
+
- When simulating event lists, ensure that the provided parameters (e.g., number of time bins, max counts per bin) are reasonable to avoid excessively large or small event lists.
|
| 276 |
+
|
| 277 |
+
### Examples
|
| 278 |
+
|
| 279 |
+
#### Creating an Event List
|
| 280 |
+
|
| 281 |
+
```python
|
| 282 |
+
from stingray import EventList
|
| 283 |
+
times = [0.5, 1.1, 2.2, 3.7]
|
| 284 |
+
mjdref = 58000.
|
| 285 |
+
energy = [0., 3., 4., 20.]
|
| 286 |
+
gti = [[0, 4]]
|
| 287 |
+
ev = EventList(times, gti=gti, energy=energy, mjdref=mjdref)
|
| 288 |
+
print(ev.time)
|
| 289 |
+
```
|
| 290 |
+
|
| 291 |
+
#### Simulating an Event List from a Light Curve
|
| 292 |
+
```python
|
| 293 |
+
from stingray import EventList, Lightcurve
|
| 294 |
+
times = np.arange(3)
|
| 295 |
+
counts = np.floor(np.random.rand(3) * 5)
|
| 296 |
+
lc = Lightcurve(times, counts, skip_checks=True, dt=1.)
|
| 297 |
+
ev = EventList.from_lc(lc)
|
| 298 |
+
print(ev.time)
|
| 299 |
+
```
|
| 300 |
+
|
| 301 |
+
## Stingray Documentation References
|
| 302 |
+
|
| 303 |
+
### Creating EventList from Photon Arrival Times
|
| 304 |
+
|
| 305 |
+
```python
|
| 306 |
+
from stingray import EventList
|
| 307 |
+
times = [0.5, 1.1, 2.2, 3.7]
|
| 308 |
+
mjdref = 58000.
|
| 309 |
+
ev = EventList(times, mjdref=mjdref)
|
| 310 |
+
print(ev.time)
|
| 311 |
+
```
|
| 312 |
+
|
| 313 |
+
### Transforming a Lightcurve into an EventList
|
| 314 |
+
```python
|
| 315 |
+
from stingray import EventList, Lightcurve
|
| 316 |
+
times = np.arange(3)
|
| 317 |
+
counts = np.floor(np.random.rand(3) * 5)
|
| 318 |
+
lc = Lightcurve(times, counts, skip_checks=True, dt=1.)
|
| 319 |
+
ev = EventList.from_lc(lc)
|
| 320 |
+
print(ev.time)
|
| 321 |
+
```
|
| 322 |
+
|
| 323 |
+
### Simulating EventList from Lightcurve
|
| 324 |
+
```python
|
| 325 |
+
from stingray import EventList, Lightcurve
|
| 326 |
+
times = np.arange(50)
|
| 327 |
+
counts = np.floor(np.random.rand(50) * 50000)
|
| 328 |
+
lc = Lightcurve(times, counts, skip_checks=True, dt=1.)
|
| 329 |
+
ev = EventList()
|
| 330 |
+
ev.simulate_times(lc)
|
| 331 |
+
print(ev.time)
|
| 332 |
+
```
|
| 333 |
+
|
| 334 |
+
### Loading and Writing EventList Objects
|
| 335 |
+
```python
|
| 336 |
+
from stingray import EventList
|
| 337 |
+
ev = EventList.read('events.fits', 'ogip')
|
| 338 |
+
ev.write("events.hdf5", "hdf5")
|
| 339 |
+
```
|
| 340 |
+
|
| 341 |
+
<br/>
|
| 342 |
+
|
| 343 |
+
"""
|