feat(highres): add TundraStore/SteriStore plate store driver - #1090

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rickwierenga wants to merge 130 commits into

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highres-tundrastore-driver

Commits on Mar 23, 2026

Commits on Mar 25, 2026

add P-DW-10ML-24-C part number
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4beca0d
Add BackendParams base class with autoreload-safe isinstance

rickwierenga
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67ec8b4

Commits on Mar 26, 2026

Commits on Mar 27, 2026

Fix lint, format, and mypy errors for CI compliance

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f2a241e
Add v1b1 branch to CI workflow triggers

rickwierenga
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0c91c9d
Add pumping capability and migrate vendor backends (#958)

rickwierenga
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e25431a
Refactor BioShake models from subclasses to factory functions

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ab4af3d
Add liquid handling capabilities (#969)

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8afc75d
Add arms module with Arm/GripperArm hierarchy, Brooks and iSWAP backends (#957)

rickwierenga
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ed710c6
productive work
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e061346

Commits on Mar 28, 2026

Add STARAutoload class for Hamilton STAR autoload module control

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1117f2c
Migrate legacy PlateReader to use capabilities

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619c7d5

Commits on Mar 29, 2026

Extract STAR subsystems and generic driver methods from legacy backend

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be81047
Rename get_ to request_ for all device-reading methods across codebase

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d364172
Add multi-channel PIP methods, foil piercing, and review fixes

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fe3e577

Commits on Mar 30, 2026

RFC 7386 JSON Merge Patch serialization with compact format (#885)

rickwierenga
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6758349

Commits on Mar 31, 2026

Add PlateWashingCapability for manifold-based plate washers (#980)

rickwierenga
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6f7f7b5
Add bulk dispenser module with Multidrop Combi backend support (#964)

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31998a7

Commits on Apr 1, 2026

Add SyringeDispensing and PeristalticDispensing capabilities

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31933a6
Migrate EL406 to Device/Driver/CapabilityBackend architecture

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97dccdd
WIP: Migrate Multidrop Combi to Device/Driver/CapabilityBackend architecture

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3854785
Migrate EL406 and BioShake docs to manufacturer-based layout

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797451e
Migrate EL406, BioShake, and 10 more devices to manufacturer-based docs

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27fdbd7
Migrate analytical device docs to manufacturer-based layout

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fe39ca8
Migrate all material-handling devices to manufacturer-based docs

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d307355
Refine Multidrop Combi dispense workflow and document DispensingOrder

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6574e39
Add PIPChannel class, extract STAR errors/parsing, legacy delegates to STARDriver

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fe3acd9
Migrate Hamilton STAR docs to manufacturer-based layout with new API

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5563420

Commits on Apr 2, 2026

Merge branch 'main' into v1b1
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b1ed92c
Fix CI, type safety, and safety-critical issues across v1b1

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819d0e3
Safety, correctness, and architecture improvements across v1b1

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588abbb

Commits on Apr 4, 2026

Port probe methods to PIPChannel, add firmware lock, fix notebooks and setup

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705bdd6
Add scientific traceability logging across all non-legacy backends and drivers

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fedaea6
Add backend_params support to all setup methods

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bd7a25b
Move single-channel queries to PIPChannel, fix move_y spacing safety

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70d55e1
Refactor shaker capability: duration required, HasContinuousShaking mixin

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c18e9c4
Add plate tracking to bulk dispensing capabilities

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eff943d
EL406: plate caching on driver, parameterless batch, ShakeParams

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9a796e4

Commits on Apr 6, 2026

Fix lint, type, and correctness issues across v1b1

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cd67533
Fix Liconic test model: use STX44_DC2 for humidity tests

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cd628e2

Commits on Apr 8, 2026

WIP: pickup_distance_from_bottom, arm delegation, STAR/STARLet classes, docs

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d96e516

Commits on Apr 9, 2026

WIP: Rename dispensing/washing classes, inline forwarding methods, BackendParams

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5c20b33
WIP: LoadingTray capability, Cytation integration, docs

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9d06b8d
Fix iSWAP close_gripper, improve iswap.ipynb docs

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8639d64
EL406: fix multi-volume batch lifecycle, add advanced usage docs

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1bd8941
Add HasLoadingTray mixin, SpectraMax LoadingTray, direct send_command in backends

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ef1764f

Commits on Apr 10, 2026

Remove aravis files (moved to separate PR #985)

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a4162e5

Commits on Apr 11, 2026

Use Aravis camera driver instead of PySpin for Cytation (#985)

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af69da8

Commits on Apr 13, 2026

basic implementation of uFactory xArm (#965)

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72ef784

Commits on Apr 15, 2026

SCILA: expose drawers as LoadingTray capabilities

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c5e31a4

Commits on Apr 16, 2026

xArm6: rename joint enum values to J1-J6

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65c9ba4

Commits on Apr 17, 2026

Migrate Tecan Infinite 200 PRO to Device/Driver/Capability architecture (#989)

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97aa2f9

Commits on Apr 18, 2026

Port Hamilton Nimbus to v1b1 architecture (#986)

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aacf8b7
Require deck at driver/backend/capability construction for STAR and Nimbus

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d3c6d0a

Commits on Apr 21, 2026

pf kinematics
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0fa5e4e

Commits on Apr 23, 2026

Expose gripper_length and gripper_z_offset on PreciseFlex400 Device

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162dd2c

Commits on Apr 25, 2026

Add Pioreactor (#893)

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2af885b

Commits on Apr 27, 2026

STARPIPChannel.request_x_pos: delegate to left_x_arm (C0 RX), was sending invalid C0 RA pn= (#1012)
BioCam
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dfacc60

Commits on Apr 28, 2026

Return STAR firmware versions as datetime.date instead of strings

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28d8540

Commits on May 4, 2026

Commits on May 5, 2026

Commits on May 13, 2026

Arm: rename request_gripper_location → request_gripper_pose
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d75aa0e

Commits on May 14, 2026

Arms: rename GripDirection→GripperDirection (string literal); rotate convention so 0°=+X (#1034)

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1a7044f

Commits on May 17, 2026

Commits on May 19, 2026

Commits on May 20, 2026

SCILA: add gas_mixer_connected flag to silence expected CO2-flow warning

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eefcd32

Commits on May 21, 2026

PF: restore main's precise_flex implementation as frozen legacy copy

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7d6c512
Remove stray claude.md
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98b6c22

Commits on Jun 5, 2026

v1: Brooks PF400: read gripper width limits from the controller; restrict freedrive default to installed axes (#1072)

BioCam
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106cf99

Commits on Jun 9, 2026

Populate STAR error trace tables on v1b1 (autoload, 96-head, X-drives) (#1082)

BioCam
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3688a28

Commits on Jun 12, 2026

v1: Brooks PF400: discover configuration and kinematics from the controller (#1073)

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3917d4e

Commits on Jun 13, 2026

feat(highres): add TundraStore plate store driver

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818c0db

Commits on Jun 15, 2026

feat(automated_retrieval): multi-tray support; use it for TundraStore's two nests

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494ceb6

Commits on Jun 16, 2026

feat(highres/tundrastore): settings client + robust pick fault handling
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c4e6a51
feat(highres/tundrastore): presence query methods
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cfc022c
fix(highres/tundrastore): recover() no-op'd on the homedstatus lie
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b2aaddd

Commits on Jun 17, 2026

feat(highres/tundrastore): close_door option on pick/place
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3f820b6

Commits on Jun 22, 2026

Commits on Jun 23, 2026

v1: `PreciseFlex`: name more controller DataIDs and add the `PowerState` value map (#1104)

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64e9a56
v1: `STAR`: drop the unused `HamiltonSTARDeck` import

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a66715a
v1: `PreciseFlexDriver`: handle user-interrupt, E-stop, and crash interruptions (#1105)

BioCam
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49c257c
format tracked files with ruff and sort imports
BioCam
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208a302
v1: `PreciseFlexArmBackend`: move per-model specifics up to the device front-ends (#1107)

BioCam
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3c129b0
v1: `PreciseFlexArmBackend`: reorganise the module into bottom-up abstraction layers (#1108)

BioCam
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98894cc

Commits on Jun 24, 2026

Restore legacy LiquidHandler arm resource moves (#1111)
j0nch
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6344107

Commits on Jun 25, 2026

v1: `PreciseFlexArmBackend`: raise `OutOfRangeOfMotionError` and auto-recover out-of-range axes (#1118)

BioCam
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da675af

Commits on Jun 27, 2026

v1: `CytationMicroscopyBackend`: add color brightfield imaging mode (#1122)

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ccd8bc8

Commits on Jun 28, 2026

v1: `LoadingTray`: pass held plate to backend `close()` (#1124)

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fd9cfc9
v1: `CytationMicroscopyBackend`: add 10x objective field of view to image_size (#1123)

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2bc7e29
Add smooth PreciseFlex Cartesian route primitive (#1117)

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ba920e0
Rename automated-retrieval `tray` parameter to `tray_index`

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60c395d
Remove tundrastore constants.py, relocate constants to their users

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ae356cc
Inline single-tray guard, drop ensure_single_tray helper

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491edf8
Drop DoorStatus/NestStatus wrappers, return dicts directly

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bdb2b4f
Make TundraStoreSettings a frozen, fully-typed dataclass

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aa9ca2b
Collapse settings loaders to a single from_lines

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3050b24
v1: AutomatedRetrieval: own racks/loading tray and storage bookkeeping (#1125)

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40be64c
Merge remote-tracking branch 'origin/v1b1' into highres-tundrastore-driver
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b152278
Follow #1125 standard: extend AutomatedRetrieval to multiple loading trays

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4263dff
Fix Liconic/Cytomat hello-world notebooks for #1125 API

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be36aca
feat(STAR): parallelize firmware commands across modules (#1128)

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0b37794
TundraStore settings: inline value conversion, drop _coerce helper

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7949eb4
TundraStore: replace DoorState/NestState enums with string literals

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63138ba
TundraStore: split monolithic backend into driver + per-capability backends

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8d6124a
Rename highres.tundrastore -> highres.sample_storage; add device subclasses

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b5a5ef3
sample_storage: split backend.py into a driver/ package, one class per file

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45c86c3
sample_storage: move tests into a tests/ package, split by concern

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88dcfc9
sample_storage: prefix device-read methods with request_

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bf0663e
sample_storage: chatterbox builds on the real driver, like STAR's chatterbox

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f31a19f

Commits on Jun 29, 2026

sample_storage: drop the chatterbox driver for now

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cd30374
fix(io/usb): separate read and write executors to prevent a self-stall (#1129)

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32f4f4d

Commits on Jul 1, 2026

feat(STAR): read recorded TADM pressure traces from a PIP channel (#1139)

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b7182dc

Commits on Jul 2, 2026

Commits on Jul 3, 2026

sample_storage: make default_tray_index 0-based (drop 1-based surface)

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40c8fd7