From 25503260ce78f1dbe43c261c60b87559f23f7397 Mon Sep 17 00:00:00 2001 From: Max Marrone Date: Fri, 13 Dec 2024 17:36:49 -0500 Subject: [PATCH] Update snapshot test for protocol type coercion bug. This Python protocol was doing something like module.load_labware("load_name", 8), which is a bug: the second argument is supposed to be a string display name, but what was passed was an integer, presumably copy-pasted from a protocol.load_labware() call. Pydantic v1 was coercing the int to a str and covering up the bug. Pydantic v2 doesn't do that particular coercion, so the bug surfaces. --- ...2bc6830494][pl_langone_ribo_pt1_ramp].json | 25943 +--------------- 1 file changed, 35 insertions(+), 25908 deletions(-) diff --git a/analyses-snapshot-testing/tests/__snapshots__/analyses_snapshot_test/test_analysis_snapshot[2bc6830494][pl_langone_ribo_pt1_ramp].json b/analyses-snapshot-testing/tests/__snapshots__/analyses_snapshot_test/test_analysis_snapshot[2bc6830494][pl_langone_ribo_pt1_ramp].json index 9e8f25df1f1..103852d1fad 100644 --- a/analyses-snapshot-testing/tests/__snapshots__/analyses_snapshot_test/test_analysis_snapshot[2bc6830494][pl_langone_ribo_pt1_ramp].json +++ b/analyses-snapshot-testing/tests/__snapshots__/analyses_snapshot_test/test_analysis_snapshot[2bc6830494][pl_langone_ribo_pt1_ramp].json @@ -5958,25759 +5958,6 @@ }, "startedAt": "TIMESTAMP", "status": "succeeded" - }, - { - "commandType": "loadLabware", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "c06d611a9cd16f109d926a07372b0d89", - 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}, - { - "commandType": "aspirate", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "b9b463d95c4eefeb5814e9982affce67", - "notes": [], - "params": { - "flowRate": 52.5, - "labwareId": "UUID", - "pipetteId": "UUID", - "volume": 14.0, - "wellLocation": { - "offset": { - "x": 0.0, - "y": 0.0, - "z": -14.25 - }, - "origin": "top", - "volumeOffset": 0.0 - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": 178.38, - "y": 74.24, - "z": 1.7499999999999993 - }, - "volume": 14.0 - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "dispense", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "7d467408fd88a0136fb6c7456c7cc94a", - "notes": [], - "params": { - "flowRate": 85.5, - "labwareId": "UUID", - "pipetteId": "UUID", - "volume": 14.0, - "wellLocation": { - "offset": { - "x": 0.0, - "y": 0.0, - "z": -14.25 - }, - "origin": "top", - "volumeOffset": 0.0 - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": 178.38, - "y": 74.24, - "z": 1.7499999999999993 - }, - "volume": 14.0 - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "moveToWell", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "fea7c6fb5de7e3dcd4bf4957de66f05e", - "notes": [], - "params": { - "forceDirect": false, - "labwareId": "UUID", - "pipetteId": "UUID", - "wellLocation": { - "offset": { - "x": 0.0, - "y": 0.0, - "z": 0.0 - }, - "origin": "top", - "volumeOffset": 0.0 - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": 178.38, - "y": 74.24, - "z": 16.0 - } - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "waitForDuration", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "cc92fcbd002554e2ce0855f343a3a68e", - "notes": [], - "params": { - "seconds": 1.0 - }, - "result": {}, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "blowout", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "017af87721e992b5157fb78be01033b2", - "notes": [], - "params": { - "flowRate": 57.0, - "labwareId": "UUID", - "pipetteId": "UUID", - "wellLocation": { - "offset": { - "x": 0.0, - "y": 0.0, - "z": 0.0 - }, - "origin": "top", - "volumeOffset": 0.0 - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": 178.38, - "y": 74.24, - "z": 16.0 - } - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "touchTip", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "d61eb6e9d9b3183f747f70ce29828ff7", - "notes": [], - "params": { - "labwareId": "UUID", - "pipetteId": "UUID", - "radius": 1.0, - "speed": 60.0, - "wellLocation": { - "offset": { - "x": 0.0, - "y": 0.0, - "z": -1.0 - }, - "origin": "top", - "volumeOffset": 0.0 - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": 178.38, - "y": 74.24, - "z": 15.0 - } - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "dropTip", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "ddda43ec173555ea3b16b98ad6d2c39e", - "notes": [], - "params": { - "alternateDropLocation": true, - "labwareId": "UUID", - "pipetteId": "UUID", - "wellLocation": { - "offset": { - "x": 0, - "y": 0, - "z": 0 - }, - "origin": "default" - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": 412.25, - "y": 364.0, - "z": 40.0 - } - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "moveLabware", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "0367269519dab3d917ff70e4c2eb3ac5", - "notes": [], - "params": { - "labwareId": "UUID", - "newLocation": { - "moduleId": "UUID" - }, - "strategy": "usingGripper" - }, - "result": {}, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "waitForDuration", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "c92eb88b6abd64aee972dffe5e25327a", - "notes": [], - "params": { - "seconds": 120.0 - }, - "result": {}, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "comment", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "fff71392918a3b8f2f00bdefa4a53134", - "notes": [], - "params": { - "message": "\n\n----------TRANSFERRING ELUTE----------\n" - }, - "result": {}, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "pickUpTip", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "1211dc66481f76a8e1dd9cc3a16fc306", - "notes": [], - "params": { - "labwareId": "UUID", - "pipetteId": "UUID", - "wellLocation": { - "offset": { - "x": 0.0, - "y": 0.0, - "z": 0.0 - }, - "origin": "top" - }, - "wellName": "A10" - }, - "result": { - "position": { - "x": 95.38, - "y": 181.38, - "z": 99.0 - }, - "tipDiameter": 5.58, - "tipLength": 47.849999999999994, - "tipVolume": 50.0 - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "aspirate", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "02042c1eb009e7757551c7d6a5e2493f", - "notes": [], - "params": { - "flowRate": 7.0, - "labwareId": "UUID", - "pipetteId": "UUID", - "volume": 17.5, - "wellLocation": { - "offset": { - "x": 0.0, - "y": 0.0, - "z": -14.149999999999999 - }, - "origin": "top", - "volumeOffset": 0.0 - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": 342.38, - "y": 181.24, - "z": 36.31 - }, - "volume": 17.5 - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "dispense", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "f88f2a7423ac5f5070ba46bd9989126c", - "notes": [], - "params": { - "flowRate": 57.0, - "labwareId": "UUID", - "pipetteId": "UUID", - "volume": 17.5, - "wellLocation": { - "offset": { - "x": 0.0, - "y": 0.0, - "z": -13.95 - }, - "origin": "top", - "volumeOffset": 0.0 - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": -5.624999999999998, - "y": 356.2, - "z": 2.3100000000000014 - }, - "volume": 17.5 - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "moveToWell", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "03a1b309d898cee327e0b3dd131a7507", - "notes": [], - "params": { - "forceDirect": false, - "labwareId": "UUID", - "pipetteId": "UUID", - "wellLocation": { - "offset": { - "x": 0.0, - "y": 0.0, - "z": 0.0 - }, - "origin": "top", - "volumeOffset": 0.0 - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": 342.38, - "y": 181.24, - "z": 50.459999999999994 - } - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "blowout", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "674540c74c2dc67ded15c1b937ef28fb", - "notes": [], - "params": { - "flowRate": 57.0, - "labwareId": "UUID", - "pipetteId": "UUID", - "wellLocation": { - "offset": { - "x": 0.0, - "y": 0.0, - "z": 0.0 - }, - "origin": "top", - "volumeOffset": 0.0 - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": -5.624999999999998, - "y": 356.2, - "z": 16.26 - } - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" - }, - { - "commandType": "dropTip", - "completedAt": "TIMESTAMP", - "createdAt": "TIMESTAMP", - "id": "UUID", - "key": "6498d67c1416ebe7d0b8c12d8b8d3c87", - "notes": [], - "params": { - "alternateDropLocation": true, - "labwareId": "UUID", - "pipetteId": "UUID", - "wellLocation": { - "offset": { - "x": 0, - "y": 0, - "z": 0 - }, - "origin": "default" - }, - "wellName": "A1" - }, - "result": { - "position": { - "x": 359.25, - "y": 364.0, - "z": 40.0 - } - }, - "startedAt": "TIMESTAMP", - "status": "succeeded" } ], "config": { @@ -31721,7 +5968,34 @@ "protocolType": "python" }, "createdAt": "TIMESTAMP", - "errors": [], + "errors": [ + { + "createdAt": "TIMESTAMP", + "detail": "ValidationError [line 54]: 2 validation errors for LoadLabwareParams\ndisplayName.str\n Input should be a valid string [type=string_type, input_value=8, input_type=int]\n For further information visit https://errors.pydantic.dev/2.10/v/string_type\ndisplayName.none\n Input should be None [type=none_required, input_value=8, input_type=int]\n For further information visit https://errors.pydantic.dev/2.10/v/none_required", + "errorCode": "4000", + "errorInfo": {}, + "errorType": "ExceptionInProtocolError", + "id": "UUID", + "isDefined": false, + "wrappedErrors": [ + { + "createdAt": "TIMESTAMP", + "detail": "pydantic_core._pydantic_core.ValidationError: 2 validation errors for LoadLabwareParams\ndisplayName.str\n Input should be a valid string [type=string_type, input_value=8, input_type=int]\n For further information visit https://errors.pydantic.dev/2.10/v/string_type\ndisplayName.none\n Input should be None [type=none_required, input_value=8, input_type=int]\n For further information visit https://errors.pydantic.dev/2.10/v/none_required", + "errorCode": "4000", + "errorInfo": { + "args": "()", + "class": "ValidationError", + "title": "LoadLabwareParams", + "traceback": " File \"/usr/local/lib/python3.10/site-packages/opentrons/protocols/execution/execute_python.py\", line N, in exec_run\n exec(\"run(__context)\", new_globs)\n\n File \"\", line N, in \n\n File \"pl_langone_ribo_pt1_ramp.py\", line N, in run\n\n File \"/usr/local/lib/python3.10/site-packages/opentrons/protocol_api/module_contexts.py\", line N, in load_labware\n labware_core = self._protocol_core.load_labware(\n\n File \"/usr/local/lib/python3.10/site-packages/opentrons/protocol_api/core/engine/protocol.py\", line N, in load_labware\n cmd.LoadLabwareParams(\n\n File \"/usr/local/lib/python3.10/site-packages/pydantic/main.py\", line N, in __init__\n validated_self = self.__pydantic_validator__.validate_python(data, self_instance=self)\n" + }, + "errorType": "PythonException", + "id": "UUID", + "isDefined": false, + "wrappedErrors": [] + } + ] + } + ], "files": [ { "name": "pl_langone_ribo_pt1_ramp.py", @@ -31737,12 +6011,6 @@ "slotName": "A3" } }, - { - "definitionUri": "opentrons/opentrons_96_wellplate_200ul_pcr_full_skirt/2", - "id": "UUID", - "loadName": "opentrons_96_wellplate_200ul_pcr_full_skirt", - "location": "offDeck" - }, { "definitionUri": "opentrons/opentrons_96_wellplate_200ul_pcr_full_skirt/2", "id": "UUID", @@ -31755,155 +6023,25 @@ "definitionUri": "opentrons/opentrons_96_wellplate_200ul_pcr_full_skirt/2", "id": "UUID", "loadName": "opentrons_96_wellplate_200ul_pcr_full_skirt", - "location": { - "moduleId": "UUID" - } + "location": "offDeck" }, { - "definitionUri": "opentrons/nest_96_wellplate_2ml_deep/2", + "definitionUri": "opentrons/opentrons_96_wellplate_200ul_pcr_full_skirt/2", "id": "UUID", - "loadName": "nest_96_wellplate_2ml_deep", - "location": { - "moduleId": "UUID" - } + "loadName": "opentrons_96_wellplate_200ul_pcr_full_skirt", + "location": "offDeck" }, { "definitionUri": "opentrons/nest_96_wellplate_2ml_deep/2", - "displayName": "8", "id": "UUID", "loadName": "nest_96_wellplate_2ml_deep", "location": { "moduleId": "UUID" } - }, - { - "definitionUri": "opentrons/nest_12_reservoir_15ml/1", - "id": "UUID", - "loadName": "nest_12_reservoir_15ml", - "location": { - "slotName": "A2" - } - }, - { - "definitionUri": "opentrons/opentrons_flex_96_tiprack_50ul/1", - "id": "UUID", - "loadName": "opentrons_flex_96_tiprack_50ul", - "location": { - "slotName": "C1" - } - }, - { - "definitionUri": "opentrons/opentrons_flex_96_tiprack_50ul/1", - "id": "UUID", - "loadName": "opentrons_flex_96_tiprack_50ul", - "location": { - "slotName": "C2" - } - }, - { - "definitionUri": "opentrons/opentrons_flex_96_tiprack_200ul/1", - "id": "UUID", - "loadName": "opentrons_flex_96_tiprack_200ul", - "location": { - "slotName": "B2" - } - }, - { - "definitionUri": "opentrons/opentrons_flex_96_tiprack_200ul/1", - "id": "UUID", - "loadName": "opentrons_flex_96_tiprack_200ul", - "location": { - "slotName": "B3" - } } ], "liquidClasses": [], - "liquids": [ - { - "description": "DB1/DP1", - "displayColor": "#7EFF42", - "displayName": "DB1/DP1", - "id": "UUID" - }, - { - "description": "RDB/RDE", - "displayColor": "#50D5FF", - "displayName": "RDB/RDE", - "id": "UUID" - }, - { - "description": "PRB/PRE", - "displayColor": "#FF4F4F", - "displayName": "PRB/PRE", - "id": "UUID" - }, - { - "description": "EPH3", - "displayColor": "#B925FF", - "displayName": "EPH3", - "id": "UUID" - }, - { - "description": "FSA/RVT", - "displayColor": "#FF9900", - "displayName": "FSA/RVT", - "id": "UUID" - }, - { - "description": "SMM", - "displayColor": "#0019FF", - "displayName": "SMM", - "id": "UUID" - }, - { - "description": "BEADS", - "displayColor": "#007AFF", - "displayName": "BEADS", - "id": "UUID" - }, - { - "description": "ETHANOL", - "displayColor": "#FF0076", - "displayName": "ETHANOL", - "id": "UUID" - }, - { - "description": "ELUTION BUFFER", - "displayColor": "#00FFBC", - "displayName": "ELUTION BUFFER", - "id": "UUID" - }, - { - "description": "RSB", - "displayColor": "#00AAFF", - "displayName": "RSB", - "id": "UUID" - }, - { - "description": "Sample", - "displayColor": "#008000", - "displayName": "Sample", - "id": "UUID" - }, - { - "description": "Mastermix", - "displayColor": "#008000", - "displayName": "Mastermix", - "id": "UUID" - }, - { - "description": "Water", - "displayColor": "#A52A2A", - "displayName": "Water", - "id": "UUID" - }, - { - "description": "DNA", - "displayColor": "#A52A2A", - "displayName": "DNA", - "id": "UUID" - } - ], + "liquids": [], "metadata": { "author": "Rami Farawi