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remove Liquid tracking from volume tracker, delete contamination tracker #744

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66c5487
remove Liquid tracking from volume tracker, delete contamination tracker
rickwierenga Nov 10, 2025
794c968
remove liquids from ops
rickwierenga Nov 10, 2025
f644321
update the visualizer
rickwierenga Nov 10, 2025
47544a1
tube
rickwierenga Nov 10, 2025
d4f17d7
volume per well
rickwierenga Nov 10, 2025
97edce8
update tracking docs
rickwierenga Nov 10, 2025
f66c2de
lint
rickwierenga Nov 10, 2025
b0dfe03
add back Plate.set_well_liquids with deprecation
rickwierenga Nov 10, 2025
b64fb6a
Update pylabrobot/visualizer/lib.js
rickwierenga Nov 10, 2025
5860c62
Update pylabrobot/visualizer/visualizer_tests.py
rickwierenga Nov 10, 2025
b26fbbe
Update pylabrobot/resources/tube.py
rickwierenga Nov 10, 2025
1032fff
Update pylabrobot/resources/errors.py
rickwierenga Nov 10, 2025
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58 changes: 18 additions & 40 deletions docs/user_guide/machine-agnostic-features/using-the-visualizer.ipynb
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Original file line number Diff line number Diff line change
Expand Up @@ -74,11 +74,7 @@
"name": "stdout",
"output_type": "stream",
"text": [
"Setting up the liquid handler.\n",
"Resource deck was assigned to the liquid handler.\n",
"Resource trash was assigned to the liquid handler.\n",
"Resource trash_core96 was assigned to the liquid handler.\n",
"Resource waste_block was assigned to the liquid handler.\n"
"Setting up the liquid handler.\n"
]
}
],
Expand Down Expand Up @@ -168,15 +164,7 @@
"execution_count": 8,
"id": "140872be",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"Resource tip carrier was assigned to the liquid handler.\n"
]
}
],
"outputs": [],
"source": [
"lh.deck.assign_child_resource(tip_car, rails=15)"
]
Expand All @@ -199,15 +187,7 @@
"execution_count": 10,
"id": "d618ec6a",
"metadata": {},
"outputs": [
{
"name": "stdout",
"output_type": "stream",
"text": [
"Resource plate carrier was assigned to the liquid handler.\n"
]
}
],
"outputs": [],
"source": [
"lh.deck.assign_child_resource(plt_car, rails=8)"
]
Expand Down Expand Up @@ -312,8 +292,7 @@
"metadata": {},
"outputs": [],
"source": [
"plate_1_liquids = [[(None, 500)]]*96\n",
"plate_1.set_well_liquids(plate_1_liquids)"
"plate_1.set_well_volumes([500]*96)"
]
},
{
Expand All @@ -323,8 +302,7 @@
"metadata": {},
"outputs": [],
"source": [
"plate_2_liquids = [[(None, 100)], [(None, 500)]]*(96//2)\n",
"plate_2.set_well_liquids(plate_2_liquids)"
"plate_2.set_well_volumes([100, 500]*(96//2))"
]
},
{
Expand Down Expand Up @@ -400,10 +378,10 @@
"text": [
"Picking up tips:\n",
"pip# resource offset tip type max volume (µL) fitting depth (mm) tip length (mm) filter \n",
" p0: tips_01_tipspot_0_0 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p1: tips_01_tipspot_1_1 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p2: tips_01_tipspot_2_2 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p3: tips_01_tipspot_3_3 0,0,0 HamiltonTip 1065 8 95.1 Yes \n"
" p0: tips_01_tipspot_A1 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p1: tips_01_tipspot_B2 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p2: tips_01_tipspot_C3 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p3: tips_01_tipspot_D4 0,0,0 HamiltonTip 1065 8 95.1 Yes \n"
]
}
],
Expand All @@ -423,10 +401,10 @@
"text": [
"Dropping tips:\n",
"pip# resource offset tip type max volume (µL) fitting depth (mm) tip length (mm) filter \n",
" p0: tips_01_tipspot_0_0 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p1: tips_01_tipspot_1_1 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p2: tips_01_tipspot_2_2 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p3: tips_01_tipspot_3_3 0,0,0 HamiltonTip 1065 8 95.1 Yes \n"
" p0: tips_01_tipspot_A1 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p1: tips_01_tipspot_B2 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p2: tips_01_tipspot_C3 0,0,0 HamiltonTip 1065 8 95.1 Yes \n",
" p3: tips_01_tipspot_D4 0,0,0 HamiltonTip 1065 8 95.1 Yes \n"
]
}
],
Expand Down Expand Up @@ -454,7 +432,7 @@
"text": [
"Picking up tips:\n",
"pip# resource offset tip type max volume (µL) fitting depth (mm) tip length (mm) filter \n",
" p0: tips_01_tipspot_0_0 0,0,0 HamiltonTip 1065 8 95.1 Yes \n"
" p0: tips_01_tipspot_A1 0,0,0 HamiltonTip 1065 8 95.1 Yes \n"
]
}
],
Expand All @@ -474,7 +452,7 @@
"text": [
"Aspirating:\n",
"pip# vol(ul) resource offset flow rate blowout lld_z \n",
" p0: 200.0 plate_01_well_1_0 0,0,0 None None None \n"
" p0: 200.0 plate_01_well_A2 0,0,0 None None None \n"
]
}
],
Expand All @@ -494,7 +472,7 @@
"text": [
"Dispensing:\n",
"pip# vol(ul) resource offset flow rate blowout lld_z \n",
" p0: 200.0 plate_02_well_0_0 0,0,0 None None None \n"
" p0: 200.0 plate_02_well_A1 0,0,0 None None None \n"
]
}
],
Expand All @@ -514,7 +492,7 @@
"text": [
"Dropping tips:\n",
"pip# resource offset tip type max volume (µL) fitting depth (mm) tip length (mm) filter \n",
" p0: tips_01_tipspot_0_0 0,0,0 HamiltonTip 1065 8 95.1 Yes \n"
" p0: tips_01_tipspot_A1 0,0,0 HamiltonTip 1065 8 95.1 Yes \n"
]
}
],
Expand Down Expand Up @@ -656,7 +634,7 @@
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.13.7"
"version": "3.9.23"
},
"toc": {
"base_numbering": 1,
Expand Down
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