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Mm rework lingfeng into Dev - #26

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mm_rework_lingfeng

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Commits on Jan 15, 2026

Fix bootstrap index size error
wei-lingfeng
committed
5a049fe

Commits on Jan 22, 2026

Simplify n_params calculation
wei-lingfeng
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d87766d

Commits on Jan 23, 2026

Merge branch 'mm_rework_lingfeng' into mm_rework
hustonm
authored
a7af1e1
Merge pull request #20 from wei-lingfeng/mm_rework
hustonm
authored
82448d3

Commits on Jan 26, 2026

Commits on Jan 28, 2026

Add save path for log file
wei-lingfeng
committed
93f4d44

Commits on Jan 30, 2026

Fix mag_lim error in align
wei-lingfeng
committed
9251d9c

Commits on Feb 2, 2026

Commits on Feb 3, 2026

Fix string warning message
wei-lingfeng
committed
dcf8d13

Commits on Feb 8, 2026

Update motion model used for keep_orig stars in align; Update chi2 after ref table has been created in align; Added save path in plots; Moved all testing data files under flystar/test/test_data; Re…
wei-lingfeng
committed
89eaee5

Commits on Feb 9, 2026

Commits on Feb 11, 2026

Midpoint test commit
wei-lingfeng
committed
2a4a611

Commits on Feb 18, 2026

Add motion_model_for_new_star used in add_rows_for_new_stars; Fixed motion_model_used column problem: Now it will only be determined by motion model fit, and the column will be removed if provided …
wei-lingfeng
committed
f979af7

Commits on Feb 26, 2026

Trim trailing spaces
wei-lingfeng
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0686a9a

Commits on Mar 19, 2026

Add number of iterations in align output information
wei-lingfeng
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3927e66
n_fit now requires unique times as well
wei-lingfeng
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6a94841

Commits on Mar 25, 2026

Added seed for test function
wei-lingfeng
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f5102b1
Added mag offset to verbose output
wei-lingfeng
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ab85b4d
Minor fix of variable names in docstring
wei-lingfeng
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aaadaa5
Masking close to 0 values in xe ye in fit motion model to avoid infinite weight
wei-lingfeng
committed
e097536
Revert "Minor fix of variable names in docstring"
wei-lingfeng
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c85d2af
Minor fix of variable names in docstring
wei-lingfeng
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82462bc

Commits on Mar 30, 2026

Commits on Apr 25, 2026

Commits on Apr 26, 2026

Added verbose control over done with fit message
wei-lingfeng
committed
7012551

Commits on Apr 27, 2026

Revert get all epochs to numpy array; Changed default mask_lists to None instead of False
wei-lingfeng
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66dc631
Fix dr calculation in match
wei-lingfeng
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0faeb87
Fix xe and ye when not provided
wei-lingfeng
committed
abbf98d

Commits on Apr 29, 2026

Changed plotly scatter to scattergl for faster plotting
wei-lingfeng
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594657a

Commits on Apr 30, 2026

Add symbol control in plotly_stars
wei-lingfeng
committed
01f3e7e

Commits on May 1, 2026

Commits on May 22, 2026

Commits on Jun 16, 2026

Commits on Jun 17, 2026

Commits on Jun 18, 2026

Fix duplicate columns; Fix plotting error
wei-lingfeng
committed
a7d1e6b
Revert n_params name and add n_fit_params attribute
wei-lingfeng
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d494c23

Commits on Jun 19, 2026

Commits on Jun 23, 2026

Remove extra import
wei-lingfeng
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e6f2583
Add missing parameters in determine_motion_model
wei-lingfeng
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e76292c

Commits on Jul 2, 2026

Switched back to standard deviation as uncertainties in startables.combine_lists; Added support for artificial star motion model fitting with x/y out (index 1).
wei-lingfeng
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d0ae608

Commits on Jul 3, 2026

Change default absolute_sigma=True in align, consistent with motion models
wei-lingfeng
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90b2bb6

Commits on Jul 7, 2026

Reverted back to trans_weights and vel_weights
wei-lingfeng
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43e285e
Reverted back to snr
wei-lingfeng
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22eefd4
Added checking metadata for optional fixed parameters checking
wei-lingfeng
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7407bce
Merge branch 'mm_rework_lingfeng' of https://github.com/wei-lingfeng/flystar into mm_rework_lingfeng
wei-lingfeng
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aaff539
Updated shift_reference_frame
wei-lingfeng
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af80a05
Added keyword check in shift_reference_frame
wei-lingfeng
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34227db

Commits on Jul 9, 2026

Commits on Jul 10, 2026

Update adding t0 and n_fit at the end of fit
wei-lingfeng
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10280eb
Update xe ye logic when not provided
wei-lingfeng
committed
78bd1a0
Adjusted hover label ordering; Updated docstring
wei-lingfeng
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06df7bf

Commits on Jul 29, 2026

Commits on Jul 30, 2026

Commits on Aug 6, 2026

Commits on Aug 7, 2026

Commits on Aug 11, 2026

Commits on Aug 12, 2026

Added support for different mag limits in each iteration in align
wei-lingfeng
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278fee3
Save ref table in fits as well
wei-lingfeng
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59f4d7c

Commits on Aug 13, 2026

Commits on Aug 14, 2026

Commits on Aug 15, 2026

Commits on Aug 16, 2026

"Claude PR Assistant workflow"
wei-lingfeng
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43bc7cb
"Claude Code Review workflow"
wei-lingfeng
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ef78316
Merge pull request #1 from wei-lingfeng/add-claude-github-actions-1786841657024
wei-lingfeng
authored
d2cb7f3
Fix NaN propagation bugs exposed by real, invalid-error astrometric data

wei-lingfeng
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claude
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97e2c7e
Add inherit_n_detect: propagate per-star detection counts across align layers

wei-lingfeng
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claude
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14e7f00
Simplify combine_lists' no-usable-weight fallback and fix its silent inf->finite bug

wei-lingfeng
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claude
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eba8435
Add vectorized Linear.run_fit_batch, fixing a stale singular-fit inf->nan bug

wei-lingfeng
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9a0f8c5
Remove misleading tqdm wrapper from determine_motion_models' model-type loop

wei-lingfeng
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2d07f94
Avoid vstack's transient double-copy in add_rows_for_new_stars

wei-lingfeng
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6aa6d38
Fix redundant full-table copying, a stale-param bug, and consolidate weighting

wei-lingfeng
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9287e51

Commits on Aug 17, 2026

Add configurable KDTree threading and a multiprocessing-overhead threshold to motion-model fitting

wei-lingfeng
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5485d21
fixed config file

gregorydavidmartinez
authored and
wei-lingfeng
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66ac298
Added flystar modules to docs.

gregorydavidmartinez
authored and
wei-lingfeng
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7b3fb01
Changed docs formatting a little.

gregorydavidmartinez
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wei-lingfeng
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a1b2409
Set up Read the Docs and fix the docs/install build chain

wei-lingfeng
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5f00827

Commits on Aug 18, 2026

Move match_workers from MosaicSelfRef/MosaicToRef.__init__ to .fit()

wei-lingfeng
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83913b6
Docstring cleanup: split mp_star_threshold's long first sentence, fix "quantites" typo

wei-lingfeng
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575bcd4
Move match_workers before mp_star_threshold in fit()/match_and_transform()

wei-lingfeng
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04910d9
Fix two spurious warnings: a real add_starlist() bug and a benign-but-noisy division

wei-lingfeng
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8d6cacd
Simplify the list_times warning fix: suppress it, don't feed a value that gets discarded anyway

wei-lingfeng
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claude
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2f2b05e
Added function to suppress meta warnings when saving a table; Removed unused comments
wei-lingfeng
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d8de7ea
Validate trans_args length against iters, and default it to a bare dict

wei-lingfeng
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claude
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4b0d6e2
Move trans_args broadcast/validation into fix_iterable_conditions

wei-lingfeng
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d40751b
Simplified check trans input
wei-lingfeng
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fc13e3f
Replace save_path's redundant pkl+fits writes with HDF5 + a slim transform pickle

wei-lingfeng
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bdcfe1a
Save trans_list_inverse as its own file instead of bundling it into trans_list.pkl

wei-lingfeng
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40928ca
Fix 0*inf->nan in error propagation, two unrelated transform bugs, and a dtype-fragile fallback

wei-lingfeng
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claude
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7414843

Commits on Aug 20, 2026

Commits on Aug 21, 2026

Interactive figure in error message if plotly is installed
wei-lingfeng
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46b3220
Fix Fixed.run_fit's chi2 to use the fit's own weights

wei-lingfeng
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ca39454
Add scipy.optimize.curve_fit agreement tests for every motion model

wei-lingfeng
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0de5dcc
Replace combine_lists' std_method with scipy's absolute_sigma convention

wei-lingfeng
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bbceec2
Route stars by requested motion model, not epoch count, when only Fixed is possible

wei-lingfeng
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8a849fb
Report inf, not a fabricated finite error, when no uncertainties exist

wei-lingfeng
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d07ed20
Standardize the time argument: shape decides shared-grid vs per-star

wei-lingfeng
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c2115bd
Add tests for the time-argument shape contract

wei-lingfeng
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48c9e07
Document the time-argument shape contract in the docstrings

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55702c6
Propagate reference stars with their best available motion model

wei-lingfeng
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7296366
Add test for reference propagation vs fitted motion models

wei-lingfeng
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185c5c0
Keep extra keyword columns in StarList instead of dropping them

wei-lingfeng
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2a76d1e
Honor a caller-supplied motion_model_input when propagating

wei-lingfeng
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60bad9c
Add tests for propagation model precedence

wei-lingfeng
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cdb9489
Drop the honor flag: stop auto-filling motion_model_input instead

wei-lingfeng
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23eb6b4
Merge determine_propagation_models into determine_motion_models

wei-lingfeng
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a130ebd

Commits on Aug 22, 2026

Let infer_positions choose the motion model itself

wei-lingfeng
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bba2dec
Label a row with the model its own parameters constitute

wei-lingfeng
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e3b5b0e
Make outlier_tol's second rejection pass actually run

wei-lingfeng
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f3b30e9
Add test that outlier_tol re-derives the transformation

wei-lingfeng
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40a8dfd
Stop degenerate fits from surfacing as an unrelated match error

wei-lingfeng
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aaed1dd
Add chi2 matching so crowded fields stop splitting one star into many

wei-lingfeng
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f40cc18

Commits on Aug 23, 2026

Skip 1D columns when copying per-list values into ref_table

wei-lingfeng
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1fd2324
Report the error of the mean, not the scatter, in combine_lists

wei-lingfeng
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64f66d9
Distinguish iter_callback's final call, and document the hook

wei-lingfeng
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e5040b1
Build the docs from this branch instead of a separate docs branch

wei-lingfeng
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3a77354
Fix docstring RST so the API reference renders

wei-lingfeng
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332380a
Fix the remaining docstring RST so every section renders

wei-lingfeng
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e8701d5
Add a live-reload docs preview

wei-lingfeng
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acabd1e
Call infer_positions, not the nonexistent predict_positions

wei-lingfeng
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6bce5dc
Derive the epoch grid instead of requiring a fully-detected star

wei-lingfeng
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bc97156

Commits on Aug 24, 2026

Remove the test suite's only network dependency

wei-lingfeng
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5ebb27c
Reorganize the docs around the science goal, and derive the equations

wei-lingfeng
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d736fa8
Update the motion model notebook to this branch's API

wei-lingfeng
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d6ed0d6
Publish an ad-free docs mirror to GitHub Pages

wei-lingfeng
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c33b4cc
Fix two prose references to the old singular method name

wei-lingfeng
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ff91a82
Read epochs as TDB, the scale the parallax code actually works in

wei-lingfeng
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6a264c3
Re-execute the notebook now that parallax fits are warning-free

wei-lingfeng
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ace706b
Convert UTC epochs to TDB rather than relabelling them

wei-lingfeng
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f3b75c9
Use realistic epochs in the notebook; label the sidebar section API

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501b7d9
Removed Empty model warnings
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190b6d1
Document that epochs are UTC decimal years

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9052521
Justify the epoch convention by its effect, not by input precision

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b60f568
Update example notebook
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3f7b1d4
Report why the initial match failed instead of UnboundLocalError

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f920584
Add a from-scratch alignment walkthrough, and a nav entry for the front page

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27f62fb
Make ignore_contains reachable, and stop it dropping stars silently

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18dc58f
Point the match-failure message at the actual cause

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84ce25d
Accept mag_lim as a list, not only as an array

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b6aa944
Lead with what FlyStar does, document every aligner parameter, blind-match

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8b9e54d
Make mag_lim's 2D form index iterations, like every other schedule

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2e48f26
Fold uncertainties into motion models; split Examples in two

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e9e828b
Normalize docstring style: no gaps between params, optional + defaults, LaTeX

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6a75dfc
Update docstrings
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3eddead
Give transformations their own page, and settle on sentence case

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60fa6a6
Nest the notebook's two sections, document motion_models' input forms

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11ec9ee
Put transformations before alignment in the guide

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d18f291
Match motion model names case-insensitively

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16b1ad2
Show the plotting code in the alignment example, escape absolute_sigma in math

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ddb5e29
Rename archive_io to io

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e8c057e
Let determine_motion_models see metadata, and accept per-star fixed params

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2368aa1
Document how the motion-model fits are vectorized, and where fixed params live

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aae9f09
Write fitted fixed params under their own name, moving conflicts to <param>_orig

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9699506
Show the fit timings as a figure, and commit the script that made them
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e9f4c41
Put the 2-epoch case back in the timings, as the fallback boundary
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a2fde73
Time the fits against the number of stars too, at fixed epochs
wei-lingfeng
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bb816d5

Commits on Aug 25, 2026

Commits on Aug 26, 2026

Point the README at both doc builds, and split the front-page example
wei-lingfeng
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677f45f
One sidebar entry for the front page, and FlyStar as the displayed name
wei-lingfeng
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ab2d1c8
Cut align memory use roughly in half by indexing per-list names

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50f7c9d
Complete and normalize the align docstrings

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3bc4add
Update readme
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ac43c0b
Keep the docs build warning-free under -W

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76ef9d8
Make the package installable from PyPI

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81a35af
Ship code, not fixtures: 9.1 MB wheel -> 0.19 MB

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e558c83
Add a Trusted Publishing workflow for PyPI releases

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6380f72
Read the docs metadata from pyproject.toml, not setup.cfg

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9e8ee96

Commits on Sep 1, 2026

Require dr_tol, drop iters, take the pass count from the longest schedule

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9eb2d42
Indent the stray docstring line that broke the docs build

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b049243
Drop the Claude workflows: not authorized in the lab repo

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5b4fff4
Add save_format option; stop suppress_meta_warnings mutating ref_table.meta

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cf9c468
Give ref_mag_lim the same per-iteration schedule as mag_lim

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8670d3c
Document ref_mag_lim's new per-iteration schedule form

wei-lingfeng
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551f8f7

Commits on Sep 6, 2026

Fix infer_positions for tables containing Empty-model stars

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32a1f0a
Let Parallax.run_fit survive epochs a star was not observed in

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26add87
Have calc_bootstrap_errors honor save_format and save_object

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a337e6d
Carry motion model fixed parameters from a ref list into the ref table

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e7cc3b0
Return str, not bytes, from StarTable.read

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f4c032f

Commits on Sep 9, 2026

Give trans_args the same per-list/per-iteration shape as dr_tol

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d24571d

Commits on Sep 18, 2026

Document trans_args' per-list shape, and test it

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d0bdb7f
Give StarList and StarTable their own class docstrings

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44e0cb9