condemned.md

Condemned material

The catalog of condemned self-material — stale branches, git stash entries, dead code and retired tests that a hygiene / repo_cleanup sweep is 95%-but-not-100% sure is trash. Symmetric to parked.md: parked.md holds work that is paused and will resume; this file holds material that is spent and awaiting elimination, recoverable right up until it is voided.

This is the index; the payload is durable git refs, not markdown. Fragile forms (local unmerged branches, stashes) are first materialised as real commits and pushed under the archive namespace refs/heads/archive/condemned/<name> (a branch prefix — GitHub only accepts pushes to refs/heads/* and refs/tags/*, so a custom refs/archive/* namespace is unpushable; filter with git branch --list 'archive/condemned/*') into PyAutoGut as the attic remote — before the local copy is deleted. Recovery is a checkout. The organ (PyAutoGut) holds and voids; the Brain hygiene conductor drives (decides what to condemn, triggers a sweep), mirroring the Heart ↔ vitals template. See the decision: complete/2026/07/pyautogut-organ-decision.md.

Lifecycle

1. Condemn — the hygiene tidy pass files an entry here (async, no synchronous per-item gate). Fragile forms are archived to a durable ref first; merged branches and committed deletions need only a SHA recorded.
2. Transit — the entry sits with a sweep-after date. Until then it is recoverable (reabsorption): restore the branch/stash from its archive ref.
3. Void — a batch sweep runs the existing repo_cleanup safety gates against entries past sweep-after and eliminates them; the entry moves out of this file (to a voided log or is deleted).

Entry schema

One ## block per item. Fields:

• type — branch | stash | file | test
• locator — the local name/path (e.g. feature/old-thing, stash@{2}, src/legacy/foo.py)
• confidence — how sure it is trash (e.g. 0.95)
• reason — why it is condemned
• merged — yes | no (a merged branch is reachable from main forever → skips the pen; near-zero risk)
• condemned — date filed (YYYY-MM-DD)
• sweep-after — earliest date it may be voided (the transit clock)
• breaks-if-wrong — what is lost if this was a false positive (informs the gate)
• archive-ref — the durable ref + SHA to recover from (refs/heads/archive/condemned/<name> @ <sha>), or n/a for a merged branch / committed deletion whose bytes live in remote history (record the pre-delete SHA instead)

Recoverability is not uniform

• Merged branches — reachable from main forever; archive-ref: n/a, a note is enough. The conductor recommends these straight to deletion without staging.
• Committed code / test deletions — the old bytes live in remote history; record only the pre-delete SHA.
• Local-only unmerged branches / stashes — exist in one machine's reflog and are gc-pruned. These must be materialised as an archive ref before deletion; a manifest that merely points at a stash is worthless the moment it is dropped.

release-datasets/autolens-regenerable

• type: file
• locator: autolens_workspace dataset/ (28 non-allowlisted simulated dirs, PR#272) — cat A+multi: group/{dark_matter_subhalo,operated,simple,simple__no_lens_light,sky_background}, imaging/{dark_matter_subhalo,extra_galaxies,lens_light_asymmetric,light_operated,simple,simple__no_lens_light,sky_background}, interferometer/{extra_galaxies,simple}, point_source/{deblending,simple}, weak/simple, multi/{imaging,interferometer}; + producer-output/guarded: cluster/csv_api_example, imaging/{dark_matter_subhalo_no_lens_light,misc,simulated_lens}, interferometer/{datacube,simulated_lens}, point_source/{simulated_lens,start_here_example}; + simpleold (dead, user-confirmed kill)
• confidence: 0.98 (0.90 for interferometer/simpleold — dead)
• reason: force-committed by pre_build's old git add -f (fixed PyAutoBuild#150); each is regenerated on demand by a guarded example script (should_simulate()/not dataset_path.exists() → simulator subprocess) or is scratch script-output with no consumer. simpleold is a stale old dataset with zero references. Removing from tracking so the tree matches .gitignore. #126 leg 3.
• merged: no
• condemned: 2026-07-13
• sweep-after: 2026-08-13
• breaks-if-wrong: a consumer that does not self-provision would hit missing data at runtime; smoke (9/9) confirms the example entries regenerate post-purge; datacube/ellipse have guarded consumers; producer-output dirs have no consumer
• archive-ref: n/a — committed deletion; bytes recoverable from remote history at pre-purge SHA 8625a1de (autolens_workspace) via git checkout 8625a1de -- dataset/<dir>

release-datasets/autogalaxy-regenerable

• type: file
• locator: autogalaxy_workspace dataset/ (17 non-allowlisted simulated dirs, PR#129) — cat A+multi: imaging/{asymmetric,clumpy,extra_galaxies,operated,sersic_x2,simple,simple__sersic,sky_background}, interferometer/{clumpy,extra_galaxies,simple}, multi/{imaging,interferometer}; + producer-output/guarded: imaging/{ellipse,misc,simulated_galaxy}, interferometer/simulated_galaxy
• confidence: 0.98
• reason: as above (#126 leg 3); regenerated on demand by guarded example scripts or scratch script-output.
• merged: no
• condemned: 2026-07-13
• sweep-after: 2026-08-13
• breaks-if-wrong: as above; smoke (8/8) confirms regeneration post-purge
• archive-ref: n/a — committed deletion; bytes recoverable from remote history at pre-purge SHA e940f8cd (autogalaxy_workspace)

release-datasets-group-b/all-four

• type: file
• locator: bare-dataset/ Group B repos (PyAutoBuild#151) — autofit_workspace (408 files, dataset/example_1d/), HowToFit (408, example_1d/), HowToGalaxy (21, imaging/), HowToLens (27, imaging/). Full dataset/ purge — nothing real was committed.
• confidence: 0.98
• reason: force-committed by pre_build's old git add -f (fixed PyAutoBuild#150). All four repos self-provision every dataset via if not dataset_path.exists(): subprocess.run([sys.executable, ".../simulator(s).py"]) (autofit/HowToFit path.exists()+from_json; HowToGalaxy/HowToLens dataset_path.exists()+from_fits). Bare dataset/ intent = nothing committed. #151.
• merged: no
• condemned: 2026-07-13
• sweep-after: 2026-08-13
• breaks-if-wrong: a non-self-provisioning script would hit missing data; smoke confirms regeneration (autofit 10/10, HowToFit 10/10, HowToGalaxy 4/4, HowToLens 6/6)
• archive-ref: n/a — committed deletion; bytes recoverable from remote history at pre-purge SHAs autofit_workspace 1254a2fe, HowToFit ccc19584, HowToGalaxy caf1657c, HowToLens 554be8b4

pj011646-wfc3-parity/superseded-branch

• type: branch
• locator: feature/pj011646-wfc3-parity (PyAutoReduce, tip bd9806b) — scripts/reduce_pj011646.py (wfc3_ir production reduction) + prototypes/pj011646_parity_fit.py (model-parity fit); PyAutoReduce#25.
• confidence: 0.9
• reason: superseded — the human is redoing the PJ011646 WFC3-IR reduction fresh via a new autolens-assistant approach (not the PyAutoReduce prototype path). Branch never pushed / no PR; pixel-parity verdict already captured on #25 (closed superseded). Kept recoverable in case the fresh redo wants the reduction/fit scripts as reference.
• merged: no
• condemned: 2026-07-13
• sweep-after: 2026-10-11
• breaks-if-wrong: loses the working wfc3_ir reduction script (program 14653, F160W, final_bits=512 workaround) + the model-parity fit harness; recoverable via pyauto-gut recover pj011646-wfc3-parity until voided.
• archive-ref: refs/heads/archive/condemned/pj011646-wfc3-parity on PyAutoReduce origin (bd9806b)

release-datasets/autolens-regenerable-leg2

• type: file
• locator: autolens_workspace dataset/ (7 committed simulated dirs, PR#353) — cluster/simple, imaging/{mass_stellar_dark,double_einstein_ring,extra_and_scaling_galaxies}, group/{mass_stellar_dark,double_einstein_ring,scaling_relation}
• confidence: 0.98
• reason: committed simulated data (~17 MB) each regenerated on demand by a guarded consumer running its paired simulator; regeneration proven from a clean tree for all 7 before purge (issue #352). .gitignore allowlist re-includes dropped in the same commit; interferometer/uv_wavelengths deliberately kept (real SMA input, no writer). #126 purge series leg (prior: PR#272).
• merged: no
• condemned: 2026-07-27
• sweep-after: 2026-08-27
• breaks-if-wrong: loses the exact historical noise realizations of the 7 datasets (regenerated copies use fresh noise); recoverable from remote history via the pre-purge SHA
• archive-ref: n/a — committed deletion; pre-purge SHA 0bb170c57 VOIDED by the 2026-07-27 leg-7 history rewrite — bytes recoverable ONLY from the local mirror backup ~/Code/PyAutoLabs-backups/autolens_workspace-pre-rewrite-2026-07-27.git

release-datasets/autogalaxy-database-orphans

• type: file
• locator: autogalaxy_workspace dataset/database/simple__{0,1,2} + scripts/guides/results/database/simulators/light_sersic_exp__{0,1,2}.py (PR#170)
• confidence: 0.98
• reason: orphaned committed simulated data (512 KB) — no commit in repo history ever contained a reader of dataset/database/ (the database guide reads dataset/imaging/*; "database" is its output namespace, matching the autolens sibling guide). The 2026-07-13 allowlist call (#126 Group B "committed-by-design aggregator data") rested on a stale prose line fixed in the same PR. Simulators deleted with their output: unconsumed, and their absence from no_run.yaml made every build re-run them (dataset byte-churn commits 34ddb66d/10a1ee64/e942d360). Dataset-bulk series leg 2 (issue #169).
• merged: no
• condemned: 2026-07-27
• sweep-after: 2026-08-27
• breaks-if-wrong: loses the exact historical noise realizations + the 3 simulator scripts; both recoverable from remote history at the recover point
• archive-ref: n/a — committed deletion; SHAs e942d360/5632f6d0 VOIDED by the 2026-07-27 leg-7 history rewrite — bytes (incl. the 3 deleted light_sersic_exp simulators, the one non-regenerable item) recoverable ONLY from ~/Code/PyAutoLabs-backups/autogalaxy_workspace-pre-rewrite-2026-07-27.git

release-datasets/autolens-many-visibilities

• type: file
• locator: autolens_workspace dataset/interferometer/many_visibilities (PR#356)
• confidence: 0.98
• reason: force-committed in a single 2026-05-14 "pre build" add and never referenced — no script writes or loads it (all 9 name mentions are prose pointing at the many_visibilities_preparation example, which reads interferometer/simple); FITS files are 8,640-byte test-resolution stubs, 1.6 of 1.64 MB is render PNGs. Dataset-bulk series follow-on, user-confirmed kill.
• merged: no
• condemned: 2026-07-27
• sweep-after: 2026-08-27
• breaks-if-wrong: loses nothing unique — stubs + renders, recoverable from remote history
• archive-ref: n/a — committed deletion; pre-purge SHA 7f6ba9954 VOIDED by the 2026-07-27 leg-7 history rewrite — bytes recoverable ONLY from ~/Code/PyAutoLabs-backups/autolens_workspace-pre-rewrite-2026-07-27.git

history-rewrite-2026-07-27-addendum

• type: file
• locator: autolens_workspace + autogalaxy_workspace + autofit_workspace — ALL pre-rewrite remote history
• confidence: 1.0 (human-authorized leg-7 rewrite, dataset-bulk series)
• reason: git filter-repo removed dead-at-HEAD blobs (purged datasets, historical output/, old howtolens/ tree, etc.); clones now 32/6/98 MiB (were 107/27/310). Every condemned entry pointing at "remote history" SHAs of these three repos (incl. release-datasets/autolens-regenerable @8625a1de, release-datasets/autogalaxy-regenerable @e940f8cd, and the autofit_workspace SHA 1254a2fe of release-datasets-group-b/all-four — the three HowTo SHAs of that entry survive, HowTo repos were NOT rewritten) is void on the remote.
• merged: n/a
• condemned: 2026-07-27
• sweep-after: never — the backups below are the permanent recover path
• breaks-if-wrong: nothing further; the rewrite already happened (HEAD trees verified byte-identical, tags preserved by name)
• archive-ref: permanent local mirror backups ~/Code/PyAutoLabs-backups/{autolens,autogalaxy,autofit}_workspace-pre-rewrite-2026-07-27.git (fsck-verified; old main SHAs 6be18d0cf / f0efa50a9 / 277164bc5)

release-datasets/autocti-imaging-ci

• type: file
• locator: autocti_workspace dataset/imaging_ci/{simple,bias_uncorrected,cosmic_rays,non_uniform,parallel_x2__serial_x2,serial_cti} (200 files, 120.2 MB, PR#12)
• confidence: 0.98
• reason: committed simulated CTI calibration data, each regenerated in ~10 s by its sole write-site simulator under scripts/imaging_ci/simulators/**; clean-tree regeneration proven per dataset pre-purge and end-to-end post-merge (92 MB rebuilt from empty with a clean git status). Dataset-bulk series leg 6 (issue #11).
• merged: no
• condemned: 2026-07-27
• sweep-after: 2026-08-27
• breaks-if-wrong: loses the exact historical noise realizations only; regenerated copies are equivalent by construction
• archive-ref: n/a — committed deletion; pre-purge SHA 272bae3 VOIDED by the 2026-07-27 leg-7 autocti rewrite — bytes recoverable ONLY from the local mirror backup ~/Code/PyAutoLabs-backups/autocti_workspace-pre-rewrite-2026-07-27.git

release-datasets/autocti-dataset-1d-overview

• type: file
• locator: autocti_workspace dataset/dataset_1d/{simple,species_x1_continuum_0,species_x3,temporal} + dataset/overview/{dataset_1d,imaging_ci}/ (282 files, 5.35 MB, PR#18)
• confidence: 0.98
• reason: committed simulated 1D CTI calibration + overview datasets, each regenerated in seconds by its sole write-site simulator (scripts/dataset_1d/simulators/** and scripts/imaging_ci/simulators/overview/calibrate.py); clean-tree regeneration proven per dataset pre-purge and re-witnessed post-purge with clean git status; 21 auto-simulate guards added to 18 consumers. The dataset-bulk leftover recorded in complete/2026/08/autocti-util-dataset-export.md. The 5 non-simulated overview media files (ccd.gif, ccd_schematic.png, cti.gif, cti_time_evolution.png, what_is_cti.png) stay committed — no write site.
• merged: no
• condemned: 2026-08-07
• sweep-after: 2026-09-07
• breaks-if-wrong: loses the exact historical noise realizations only; regenerated copies are equivalent by construction
• archive-ref: n/a — committed deletion; pre-purge SHA 50b701d on autocti_workspace main (post-rewrite history — reachable on the remote)

pyautogalaxy/docs-cite-prodigy

• type: branch
• locator: docs/cite-prodigy (PyAutoGalaxy, tip e06a527)
• confidence: 0.95
• reason: hygiene tidy pre-scan flagged as a stale local unmerged branch (not the default branch, no unique work in flight) in the PyAutoGalaxy checkout. Human-authorized batch condemnation 2026-07-30.
• merged: no
• condemned: 2026-07-30
• sweep-after: 2026-08-29
• breaks-if-wrong: loses whatever cite-prodigy docs drafting the branch held; recoverable via pyauto-gut recover pyautogalaxy-docs-cite-prodigy until voided.
• archive-ref: refs/heads/archive/condemned/pyautogalaxy-docs-cite-prodigy on PyAutoGalaxy origin (e06a527)

pyautolens/docs-cite-prodigy

• type: branch
• locator: docs/cite-prodigy (PyAutoLens, tip 03ad3f8)
• confidence: 0.95
• reason: hygiene tidy pre-scan flagged as a stale local unmerged branch (not the default branch, no unique work in flight) in the PyAutoLens checkout. Human-authorized batch condemnation 2026-07-30.
• merged: no
• condemned: 2026-07-30
• sweep-after: 2026-08-29
• breaks-if-wrong: loses whatever cite-prodigy docs drafting the branch held; recoverable via pyauto-gut recover pyautolens-docs-cite-prodigy until voided.
• archive-ref: refs/heads/archive/condemned/pyautolens-docs-cite-prodigy on PyAutoLens origin (03ad3f8)

pyautobrain/release-accept-red-override

• type: branch
• locator: feature/release-accept-red-override (PyAutoBrain, tip 29105d9)
• confidence: 0.95
• reason: hygiene tidy pre-scan flagged as a stale local unmerged branch in the PyAutoBrain checkout. Human-authorized batch condemnation 2026-07-30.
• merged: no
• condemned: 2026-07-30
• sweep-after: 2026-08-29
• breaks-if-wrong: loses the release-accept-red-override prototype work; recoverable via pyauto-gut recover pyautobrain-feature-release-accept-red-override until voided.
• archive-ref: refs/heads/archive/condemned/pyautobrain-feature-release-accept-red-override on PyAutoBrain origin (29105d9)

pyautobrain/stash-remove-pulse-compat

• type: stash
• locator: stash@{0} (PyAutoBrain) — "On remove-pulse-compat: preserve feature/remove-pulse-compat before PyAutoHeart issue 27"
• confidence: 0.95
• reason: hygiene tidy pre-scan flagged a stale local stash in the PyAutoBrain checkout. Materialised to a branch (git branch <tmp> stash@{0}, non-destructive — no apply/pop) before archiving, then dropped. Human-authorized batch condemnation 2026-07-30.
• merged: no
• condemned: 2026-07-30
• sweep-after: 2026-08-29
• breaks-if-wrong: loses the preserved remove-pulse-compat WIP; recoverable via pyauto-gut recover pyautobrain-stash--0- until voided.
• archive-ref: refs/heads/archive/condemned/pyautobrain-stash--0- on PyAutoBrain origin (ff1af88)

pyautoheart/autonerves-verify-install

• type: branch
• locator: feature/autonerves-verify-install (PyAutoHeart, tip 2a1f276)
• confidence: 0.95
• reason: hygiene tidy pre-scan flagged as a stale local unmerged branch in the PyAutoHeart checkout. Human-authorized batch condemnation 2026-07-30.
• merged: no
• condemned: 2026-07-30
• sweep-after: 2026-08-29
• breaks-if-wrong: loses the autonerves-verify-install prototype work; recoverable via pyauto-gut recover pyautoheart-feature-autonerves-verify-install until voided.
• archive-ref: refs/heads/archive/condemned/pyautoheart-feature-autonerves-verify-install on PyAutoHeart origin (2a1f276)

pyautomind/lifecycle-record-auto-index

• type: branch
• locator: feature/lifecycle-record-auto-index (PyAutoMind, tip 4b06f15)
• confidence: 0.95
• reason: hygiene tidy pre-scan flagged as a stale local unmerged branch in the PyAutoMind checkout. Human-authorized batch condemnation 2026-07-30.
• merged: no
• condemned: 2026-07-30
• sweep-after: 2026-08-29
• breaks-if-wrong: loses the lifecycle-record-auto-index prototype work; recoverable via pyauto-gut recover pyautomind-feature-lifecycle-record-auto-index until voided.
• archive-ref: refs/heads/archive/condemned/pyautomind-feature-lifecycle-record-auto-index on PyAutoMind origin (4b06f15)

pyautomind/morning-status-workflow

• type: branch
• locator: feature/morning-status-workflow (PyAutoMind, tip 13ecca7)
• confidence: 0.95
• reason: hygiene tidy pre-scan flagged as a stale local unmerged branch in the PyAutoMind checkout. Human-authorized batch condemnation 2026-07-30.
• merged: no
• condemned: 2026-07-30
• sweep-after: 2026-08-29
• breaks-if-wrong: loses the morning-status-workflow prototype work; recoverable via pyauto-gut recover pyautomind-feature-morning-status-workflow until voided.
• archive-ref: refs/heads/archive/condemned/pyautomind-feature-morning-status-workflow on PyAutoMind origin (13ecca7)

pyautomind/stash-pre-sync-2026-07-06

• type: stash
• locator: stash@{0} (PyAutoMind) — "pre-sync local PyAutoMind edits 2026-07-06 (restored after accidental drop)"
• confidence: 0.95
• reason: hygiene tidy pre-scan flagged a stale local stash in the PyAutoMind checkout. Materialised to a branch (git branch <tmp> stash@{0}, non-destructive — no apply/pop) before archiving, then dropped. Human-authorized batch condemnation 2026-07-30.
• merged: no
• condemned: 2026-07-30
• sweep-after: 2026-08-29
• breaks-if-wrong: loses the pre-sync 2026-07-06 WIP; recoverable via pyauto-gut recover pyautomind-stash--0- until voided.
• archive-ref: refs/heads/archive/condemned/pyautomind-stash--0- on PyAutoMind origin (9dc61c5)