XRT DEM Iterative Solver Module#367

Open

joyvelasquez wants to merge 221 commits into

HinodeXRT:mainfrom

joyvelasquez:xray-plasma-decoder-dem-solver

Commits on Jul 2, 2026

New folder and init for DEM efforts
joyvelasquez
committed
Add new script that will hold DEM code
joyvelasquez
committed
Fixing ruff rules
joyvelasquez
committed
Adding to make new branch'
joyvelasquez
committed
Move xrt_dem_iterative module into xrtpy/
joyvelasquez
committed
Updating new function-calling
joyvelasquez
committed
Define main elements
joyvelasquez
committed
Adding observed_intensities function
joyvelasquez
committed
Adding observed_intensities function
joyvelasquez
committed
Adding a quick for consistency;
joyvelasquez
committed
Adding functions
joyvelasquez
committed
Updated method of naming functions
joyvelasquez
committed
Adding XRTDEMIterative class to the init
joyvelasquez
committed
Adding intensity_errors function
joyvelasquez
committed
Adding conditions to values
joyvelasquez
committed
Adding more basic info for using in mandatory functions and check of input
joyvelasquez
committed
Applied ruff
joyvelasquez
committed
Add basic function to recorde number of MC user wantst to run
joyvelasquez
committed
Applied black
joyvelasquez
committed
Adding max iter
joyvelasquez
committed
Adding create_logT_grid
joyvelasquez
committed
Adding _build_response_matrix
joyvelasquez
committed
Trying to get a working initial estimate of how much plasma is emitting at each temperature
joyvelasquez
committed
Creating a script for monte_carlo_iteration'
joyvelasquez
committed
Adding init
joyvelasquez
committed
WIP: saving changes before rebase
joyvelasquez
committed
Updating path the data file
joyvelasquez
committed
Updating init info
joyvelasquez
committed
Applied Black
joyvelasquez
committed
Working on solving DEM scale issue
joyvelasquez
committed
Working on create_logT_grid
joyvelasquez
committed
move the emptiness check above the formatter.
joyvelasquez
committed
Tighten the first error block
joyvelasquez
committed
little snippet is just a guardrail to make sure your log-T grid is real and big enough
joyvelasquez
committed
Forgot to define - n_pts
joyvelasquez
committed
Redundant error check block at the end
joyvelasquez
committed
Minnor clean up
joyvelasquez
committed
Clean up on docstrings
joyvelasquez
committed
Trigger the warning only once, store the result
joyvelasquez
committed
Clean up on docstrings
joyvelasquez
committed
Clean up text
joyvelasquez
committed
Updating create_logT_grid
joyvelasquez
committed
Applying black
joyvelasquez
committed
Updated _interpolate_responses_to_grid
joyvelasquez
committed
Removing code where it is used twice for the same reason
joyvelasquez
committed
Cleaning up some function logic;
joyvelasquez
committed
Adding ComputeDEMStatistics
joyvelasquez
committed
Script for DEM Stats
joyvelasquez
committed
Adding ComputeDEMStatistics
joyvelasquez
committed
Removing unsed code
joyvelasquez
committed
Applying black
joyvelasquez
committed
Minor update to MC code
joyvelasquez
committed
If lmfit is required for any normal use (not just testing)
joyvelasquez
committed
Syntax error
joyvelasquez
committed
missing a validate_inputs() method
joyvelasquez
committed
Putting validate_inputs() inside class
joyvelasquez
committed
Cleaning codedem_solver.py
joyvelasquez
committed
Cleaning code
joyvelasquez
committed
Cleaning code - test
joyvelasquez
committed
UPdated with two reference for DEM paper
joyvelasquez
committed
WIP: local changes before pull
joyvelasquez
committed
WIP: local changes in dem_solver.py
joyvelasquez
committed
Trying to fix git doc 3.13 failing test
joyvelasquez
committed
fixing - generate_temperature_responses reference
joyvelasquez
committed
Cleaning function
joyvelasquez
committed
Clean and updated - create_logT_grid
joyvelasquez
committed
Update two functions
joyvelasquez
committed
Removing_build_response_matrix function
joyvelasquez
committed
Removing older version of -_interpolate_responses_to_grid
joyvelasquez
committed
Clean code and apply black to triple checked code
joyvelasquez
committed
Updated solver still needs alot of work - just saving
joyvelasquez
committed
Moving plotting function to its own script
joyvelasquez
committed
Applying black to plotting
joyvelasquez
committed
Updated and cleaned out dem_solver main code
joyvelasquez
committed
Removed code that is not going to be used
joyvelasquez
committed
Removed and cleared out code - will update soon
joyvelasquez
committed
Appling black
joyvelasquez
committed
Testingccorrect physical units
joyvelasquez
committed
Corrected use of relative_error and added notes to correct/check later
joyvelasquez
committed
Updated function names to better understand/reference in code
joyvelasquez
committed
Debugging-updates made
joyvelasquez
committed
Adding code incase - observed intensities are all zero.
joyvelasquez
committed
Fixing placement of code
joyvelasquez
committed
Prepare the scaled observed intensities and uncertainties-new function
joyvelasquez
committed
Just a note to add test for scaling before being sent to DEM function
joyvelasquez
committed
Removed self.logT in the init and kept a sinlge one in a created functioncreate_logT_grid which simply creates the temperature grid which will be used in the whole code/dem.
joyvelasquez
committed
Clean up - _estimate_initial_dem and mirror IDL where I forgot to -Use flat dem for inital guess
joyvelasquez
committed
Cleaned up code and methods
joyvelasquez
committed
Quick clean up
joyvelasquez
committed
Working on the MC'
joyvelasquez
committed
Removing code that will not be used
joyvelasquez
committed
Worked on the code method and finally got a DEM and MC to work, main issue - use *result.params*, not params0. I think I finally got the DEM WORKINGGGGGG
joyvelasquez
committed
Cleaning up plotting to just two.
joyvelasquez
committed
Clean up code and added summary function
joyvelasquez
committed
Cleaned up plotting functions
joyvelasquez
committed
Cleaning up minor code issues
joyvelasquez
committed
Removed xrt_dem_statistics.py and monte_carlo_iteration.py
joyvelasquez
committed
Cleaned up summary function
joyvelasquez
committed
Working on test now
joyvelasquez
committed
Adding more test
joyvelasquez
committed
Correction to warning error output
joyvelasquez
committed
Adding more test
joyvelasquez
committed
spline testing
joyvelasquez
committed
Creating test for residuals - dummy data
joyvelasquez
committed
Adding more test, and cleaning up formatting
joyvelasquez
committed
Now working on docstrings-main function doc
joyvelasquez
committed
Updating intensity_errors doc
joyvelasquez
committed
Cleaned up doc for _interpolate_responses_to_grid and _estimate_initial_dem
joyvelasquez
committed
Added more docstrings and code formatting using tools like black, ruff, ect.
joyvelasquez
committed
Few string/comment edits
joyvelasquez
committed
Cleaning up code and removing comments
joyvelasquez
committed
Working on docs site for the DEM
joyvelasquez
committed
Updating doc site page
joyvelasquez
committed
Updating DEM doc site
joyvelasquez
committed
Few doc edits
joyvelasquez
committed
Trying to fix github doc test to pass
joyvelasquez
committed
Added three new works-def
joyvelasquez
committed
Working on test for DEM;
joyvelasquez
committed
Updating testing values to real values
joyvelasquez
committed
Adding more IDL sav DEM testing files
joyvelasquez
committed
Adding intensities warning for values given for 2500.
joyvelasquez
committed
Adding warning for Negative observed intensities
joyvelasquez
committed
Working on doc site
joyvelasquez
committed
Updated text in doc site
joyvelasquez
committed
Updated in Overview of the XRTDEMIterative section
joyvelasquez
committed
Updating text in Comparison with IDL with IDL section
joyvelasquez
committed
Updating text in Mathematical background section
joyvelasquez
committed
Overall update/review of doc
joyvelasquez
committed
Creating a new rst in reference for XRT DEM
joyvelasquez
committed
Adding sys
joyvelasquez
committed
Updated some text
joyvelasquez
committed
Updating reference files
joyvelasquez
committed
updated init
joyvelasquez
committed
Updated doc string
joyvelasquez
committed
Working on a DEM notebook
joyvelasquez
committed
Working to fix github doc testing - no passing
joyvelasquez
committed
Updating docstrings
joyvelasquez
committed
Updating api
joyvelasquez
committed
Reviewing test- clearing up names, test, and methods
joyvelasquez
committed
Removed section into a new script
joyvelasquez
committed
Adding IDL data for testing with xrtpy- dem
joyvelasquez
committed
New DEM testing-script for IDL and Python
joyvelasquez
committed
Created a new scipt that will be use to host functions-help break down IDL data - ready for xrtpy testing
joyvelasquez
committed
Applying black to code formatting
joyvelasquez
committed
Update DEM test logic and utilities
joyvelasquez
committed
Testing out method to fix bug
joyvelasquez
committed
Removing _run_monte_carlo - never reference after all
joyvelasquez
committed
Updating testing method
joyvelasquez
committed
Updating/correcting - weights
joyvelasquez
committed
Removing dead code - testing DEM without it - _prepare_scaled_observations
joyvelasquez
committed
Update test to reflect changes - Python implementation overrides with flat logDEM = 0
joyvelasquez
committed
Update methods
joyvelasquez
committed
Updating number value trigger
joyvelasquez
committed
rename all areas from errors to intensity
joyvelasquez
committed
Cleaning up code
joyvelasquez
committed
Clean up summary function
joyvelasquez
committed
Fixing ruff checks for all
joyvelasquez
committed
Updated plotting methods-better display
joyvelasquez
committed
Minor updates
joyvelasquez
committed
Cleaning up script
joyvelasquez
committed
Rename test file to lowercase for consistency
joyvelasquez
committed
Rename test file to lowercase for consistency
joyvelasquez
committed
Removing printing statement that is not need
joyvelasquez
committed
[pre-commit.ci] auto fixes from pre-commit.com hooks

pre-commit-ci[bot]
authored and
joyvelasquez
committed
Fixing pre-commit issue - link to logger placement in code
joyvelasquez
committed
Updating text using error to uncertainities
joyvelasquez
committed
Minor edits
joyvelasquez
committed
Fixing minor issues to pass github doc test
joyvelasquez
committed
Fixing minor issues to pass github doc test
joyvelasquez
committed
Fixing minor issues to pass github doc test
joyvelasquez
committed
Working to pass doc test
joyvelasquez
committed
Working to pass doc test
joyvelasquez
committed
Working to pass doc test-part 6
joyvelasquez
committed
Working to fix doc github testing
joyvelasquez
committed
Working to fix doc github testing
joyvelasquez
committed
Renaming files ince CI fast as test
joyvelasquez
committed
Working to pass Github python 3.13 test
joyvelasquez
committed
Working to fix python 3.11 git test
joyvelasquez
committed
Working to fix python 3.11 git test pt2
joyvelasquez
committed
Working to fix python 3.11 git test pt3
joyvelasquez
committed
Startign to work on the change log.
joyvelasquez
committed
Startign to work on the change log-pt 2.
joyvelasquez
committed
Working on userface printing info
joyvelasquez
committed
Rename DEM test file to test_dem_solver
joyvelasquez
committed
Added plot smoke tests
joyvelasquez
committed
Testing intensity_uncertainties
joyvelasquez
committed
Updated-near complete exaple user code
joyvelasquez
committed
Updated-near complete exaple user code pt2-git python test not passing
joyvelasquez
committed
Updating plotting to have info about the default error method used for the plotting
joyvelasquez
committed
Creating a tool to run in all sav files for testing
joyvelasquez
committed
updated solver
joyvelasquez
committed
Script to help run and open IDL -sav files for DEM testing in XRTpy
joyvelasquez
committed
Helper script for plots
joyvelasquez
committed
Creating a new script to help me test IDL vs XRTpy more cleanly
joyvelasquez
committed
Code to plot results from testing/comparsion
joyvelasquez
committed
Testing script
joyvelasquez
committed
Removing random script
joyvelasquez
committed
Moving older testing methods to other section before deleting
joyvelasquez
committed
Removing legacy IDL comparsion scripts and test data files
joyvelasquez
committed
Moving a checking-function yup sooner to makes sure it gets triggered/reached
joyvelasquez
committed
Adding more basic testing with expected outcomes
joyvelasquez
committed
Adding more basic testing with expected outcomes-pt2
joyvelasquez
committed
Correction to _reconstruct_dem_from_knots function- n_spl >= 2
joyvelasquez
committed
Updated and latest basic testing - 3 real bugs caught!
joyvelasquez
committed
Updates
joyvelasquez
committed
Will be working on this soon - empty for now
joyvelasquez
committed
Created to help plot test
joyvelasquez
committed
Minnor changes
joyvelasquez
committed
Will be adding to it soon
joyvelasquez
committed
Push forward to move to a different PR
joyvelasquez
committed
Push forward to move to a different PR
joyvelasquez
committed
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot]
committed
Add ruff config and fix pre-commit issues for DEM PR
joyvelasquez
committed
Enable parallel test execution in noxfile (#400)

joyvelasquez
and
joyvelasquez
committed
Merge branch 'main' into xray-plasma-decoder-dem-solver
joyvelasquez
authored