Merge pull request #5009 from Opentrons/develop

chore(Release): 2024-01-25

data/data/fields.csv

@@ -548,7 +548,7 @@ include_mastermix_step,1
 include_moving_fresh_plate,1
 include_multi,1
 include_ntc,2
-include_pause,1
+include_pause,2
 include_sample_step,1
 include_standards_only,1
 include_wash1,1
@@ -580,7 +580,9 @@ init_vol_buff1,1
 init_vol_buff2,1
 init_vol_buff3,1
 init_vol_dil,2
+init_vol_meth,1
 init_vol_sds,2
+init_vol_standard,1
 init_vols_csv,1
 initial_denaturation_cycles,1
 initial_vol,1
@@ -608,6 +610,7 @@ is_use_custom_block,1
 is_verbose,1
 ki_dil,1
 label,1
+labware,1
 labware1,1
 labware2,1
 labware3,1
@@ -725,8 +728,8 @@ lysis,1
 lysis_vol,1
 m10_mount,2
 m1k,1
-m20_mount,80
-m300_mount,110
+m20_mount,83
+m300_mount,112
 m300_type,2
 m_mount,1
 mag_bead_mix_resuspend_reps,1
@@ -910,7 +913,9 @@ num_rounds,1
 num_row,1
 num_rows_a,1
 num_rows_b,1
-num_samp,71
+num_samp,75
+num_samp_lysis,1
+num_samp_mmx,1
 num_samp_p1,1
 num_samp_p2,1
 num_samp_plate1,1
@@ -967,7 +972,7 @@ output_labware,1
 overage_percent,12
 p1000_flow_rate_asp,2
 p1000_flow_rate_disp,2
-p1000_mount,36
+p1000_mount,37
 p1000_rate,1
 p1000_sample_height,1
 p1000_single_mount,1
@@ -986,7 +991,7 @@ p1kmnt,1
 p1n,1
 p1num,1
 p20_blowout_height,1
-p20_mount,136
+p20_mount,137
 p20_multi_mount,3
 p20_rate,2
 p20_reservoir_height,1
@@ -1003,7 +1008,7 @@ p2num,1
 p300_gen,1
 p300_mixing_height,1
 p300_mnt,3
-p300_mount,156
+p300_mount,160
 p300_mount_1,1
 p300_multi_mount,7
 p300_rate,1
@@ -1329,6 +1334,7 @@ shake_well,1
 side_x_radius,1
 single_channel_mount,1
 single_channel_type,1
+single_dilution,1
 single_pip_info,1
 size,1
 size_select,1
@@ -1387,7 +1393,7 @@ start_buff_vol,1
 start_col,2
 start_column,1
 start_index_tip,1
-start_tip,2
+start_tip,3
 start_tip_p20,2
 start_tip_p300,2
 start_urea_vol,1
@@ -1471,7 +1477,7 @@ temperature2,1
 tempgen,1
 template_vol,1
 test_method,1
-test_mode,1
+test_mode,2
 test_mode_beads,1
 test_plates,1
 tfa_540,1
@@ -1623,7 +1629,7 @@ v_0_tube2,1
 v_csv,2
 vhb_vol,1
 vial_map,1
-vol,2
+vol,3
 vol_a_to_b,1
 vol_aliqout,1
 vol_aliquot,1
@@ -1659,17 +1665,20 @@ vol_h_lysate,1
 vol_ic,1
 vol_initial,1
 vol_lys_buffer,1
+vol_lysis_mix,1
 vol_media_tubes,1
 vol_meoh,1
 vol_mix,2
 vol_mm,3
 vol_mobile_phase,1
 vol_mq,1
 vol_neutralization_buffer,1
+vol_pcr_mix,1
 vol_peptide1,1
 vol_peptide2,1
 vol_peptide3,1
 vol_pma_ca,1
+vol_primer,1
 vol_reagent,1
 vol_refill,1
 vol_removal,1

protoBuilds/00222e-dd/README.json

@@ -1,5 +1,5 @@
 {
-    "author": "Opentrons\nOpentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. Submit a request to add this protocol to the new library.",
+    "author": "Opentrons",
     "categories": {
         "Sterile Workflows": [
             "Cell Culture"
@@ -10,7 +10,7 @@
     "internal": "00222e-dd",
     "labware": "\nThermo Scientific Nunc 96 Well Plate 2000 \u00b5L #278743\nThermofisher 96 Well Plate 300 \u00b5L #167008\nOpentrons 96 Tip Rack 300 \u00b5L\n",
     "markdown": {
-        "author": "[Opentrons](https://opentrons.com/)\n\n\n\n# Opentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. [Submit a request](https://docs.google.com/forms/d/e/1FAIpQLSdYYp9QCKow4nn0KlCVsMS3HX0eJ0N9O7-erajKvcpT0lWbSg/viewform) to add this protocol to the new library.\n\n",
+        "author": "[Opentrons](https://opentrons.com/)\n\n\n\n\n",
         "categories": "* Sterile Workflows\n\t* Cell Culture\n\n\n",
         "deck-setup": "![deck](https://opentrons-protocol-library-website.s3.amazonaws.com/custom-README-images/00222e-dd/deck.png)\n\n\n",
         "description": "This protocol performs a drug dosing assay in triplicate for up to 3 cell lines and 3 replicate plates.\n\n\n",

protoBuilds/00222e-seed/README.json

@@ -1,5 +1,5 @@
 {
-    "author": "Opentrons\nOpentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. Submit a request to add this protocol to the new library.",
+    "author": "Opentrons",
     "categories": {
         "Sterile Workflows": [
             "Seeding"
@@ -10,7 +10,7 @@
     "internal": "00222e-seed",
     "labware": "\nThermofisher 96 Well Plate 300 \u00b5L #167008\nOpentrons 96 Tip Rack 300 \u00b5L\n",
     "markdown": {
-        "author": "[Opentrons](https://opentrons.com/)\n\n\n\n# Opentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. [Submit a request](https://docs.google.com/forms/d/e/1FAIpQLSdYYp9QCKow4nn0KlCVsMS3HX0eJ0N9O7-erajKvcpT0lWbSg/viewform) to add this protocol to the new library.\n\n",
+        "author": "[Opentrons](https://opentrons.com/)\n\n\n\n\n",
         "categories": "* Sterile Workflows\n\t* Seeding\n\n\n",
         "deck-setup": "![deck](https://opentrons-protocol-library-website.s3.amazonaws.com/custom-README-images/00222e-seed/deck.png)\n\n\n",
         "description": "This protocol performs a seeding assay in triplicate for up to 3 cell lines and 3 replicate plates.\n\n\n",

protoBuilds/00222e/README.json

@@ -1,5 +1,5 @@
 {
-    "author": "Opentrons\nOpentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. Submit a request to add this protocol to the new library.",
+    "author": "Opentrons",
     "categories": {
         "Sample Prep": [
             "Serial Dilution and Screening"
@@ -10,7 +10,7 @@
     "internal": "00222e",
     "labware": "\nOpentrons 96 Tip Rack 300 \u00b5L\nOpentrons 96 Tip Rack 20 \u00b5L\nOpentrons 10 Tube Rack with Falcon 4x50 mL, 6x15 mL Conical\nOpentrons 24 Tube Rack with Eppendorf 1.5 mL Safe-Lock Snapcap\n",
     "markdown": {
-        "author": "[Opentrons](https://opentrons.com/)\n\n\n\n# Opentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. [Submit a request](https://docs.google.com/forms/d/e/1FAIpQLSdYYp9QCKow4nn0KlCVsMS3HX0eJ0N9O7-erajKvcpT0lWbSg/viewform) to add this protocol to the new library.\n\n",
+        "author": "[Opentrons](https://opentrons.com/)\n\n\n\n\n",
         "categories": "* Sample Prep\n\t* Serial Dilution and Screening\n\n\n",
         "deck-setup": "![deck](https://opentrons-protocol-library-website.s3.amazonaws.com/custom-README-images/00222e/deck.png)\n\n\n",
         "description": "This protocol adds a serially diluted stock solution to 12 plasma filled vials. The serial dilution can be toggled on and off in the variables. This protocol also predicts diluent and plasma height based on known labware dimensions. The initial liquid level needs to be specified for this to be accurate.\n\n\n",

protoBuilds/002af3/README.json

@@ -1,5 +1,5 @@
 {
-    "author": "Opentrons\nOpentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. Submit a request to add this protocol to the new library.",
+    "author": "Opentrons",
     "categories": {
         "PCR": [
             "PCR Prep"
@@ -8,7 +8,7 @@
     "description": "This protocol builds a 384 well plate with from up to 14 columns from up to 2 96 well plates. It is a pythonization of this protocol, which only could not run a variable number of columns. This protocol is used for building qPCR plates.\n\n\n\n8-Channel Electronic Pipette (GEN2) P20\nOpentrons 20uL Filter Tips\nHard-Shell 384-Well PCR Plates, thin wall, skirted, clear/white #HSP3805\nNEST 96 Deepwell Plate 2mL\n",
     "internal": "002af3",
     "markdown": {
-        "author": "[Opentrons](https://opentrons.com/)\n\n\n# Opentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. [Submit a request](https://docs.google.com/forms/d/e/1FAIpQLSdYYp9QCKow4nn0KlCVsMS3HX0eJ0N9O7-erajKvcpT0lWbSg/viewform) to add this protocol to the new library.\n\n",
+        "author": "[Opentrons](https://opentrons.com/)\n\n\n\n",
         "categories": "* PCR\n\t* PCR Prep\n\n",
         "description": "This protocol builds a 384 well plate with from up to 14 columns from up to 2 96 well plates. It is a pythonization of [this protocol](https://s3.amazonaws.com/pf-upload-01/u-4256/0/2020-07-17/uo03r2t/Covid-19%2012%20columns%20.json), which only could not run a variable number of columns. This protocol is used for building qPCR plates.\n\n---\n![Materials Needed](https://s3.amazonaws.com/opentrons-protocol-library-website/custom-README-images/001-General+Headings/materials.png)\n\n* [8-Channel Electronic Pipette (GEN2) P20](https://shop.opentrons.com/collections/ot-2-robot/products/8-channel-electronic-pipette)\n* [Opentrons 20uL Filter Tips](https://shop.opentrons.com/products/opentrons-20ul-filter-tips)\n* [Hard-Shell 384-Well PCR Plates, thin wall, skirted, clear/white #HSP3805](https://www.bio-rad.com/en-us/sku/hsp3805-hard-shell-384-well-pcr-plates-thin-wall-skirted-clear-white?ID=hsp3805)\n* [NEST 96 Deepwell Plate 2mL](http://www.cell-nest.com/page94?product_id=101&_l=en)\n\n",
         "internal": "002af3\n",

protoBuilds/0045f1/README.json

@@ -1,5 +1,5 @@
 {
-    "author": "Opentrons\nOpentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. Submit a request to add this protocol to the new library.",
+    "author": "Opentrons",
     "categories": {
         "Sample Prep": [
             "Plate Filling"
@@ -10,7 +10,7 @@
     "internal": "0045f1",
     "labware": "\nOpentrons 10ul filter tips\nOpentrons 4-in-1 tube rack with Eppendorf 1.5mL safelock snapcap\nCustom slide plate\n",
     "markdown": {
-        "author": "[Opentrons](https://opentrons.com/)\n\n\n# Opentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. [Submit a request](https://docs.google.com/forms/d/e/1FAIpQLSdYYp9QCKow4nn0KlCVsMS3HX0eJ0N9O7-erajKvcpT0lWbSg/viewform) to add this protocol to the new library.\n\n",
+        "author": "[Opentrons](https://opentrons.com/)\n\n\n\n",
         "categories": "* Sample Prep\n\t* Plate Filling\n\n",
         "deck-setup": "![deck layout](https://opentrons-protocol-library-website.s3.amazonaws.com/custom-README-images/0045f1/Screen+Shot+2021-11-10+at+5.49.36+PM.png)\n\n\n---\n\n",
         "description": "This protocol spots up to 6 slides with antibody. Each slide has 8 wells, to which the protocol will spot with 8 dots for wells 2-7. The user has the ability to manipulate the spacing between the dots, as well as the volume of the dispenses. The user can also specify the number of slides spotted. Please see below for the order in which slides are spotted.\n\nExplanation of complex parameters below:\n* `Number of tubes`: Specify the number of tubes this protocol will run.\n* `Number of Slides`: Specify the number of slides for this run (1-6).\n* `Spot Spacing`: Specify the spacing between dots on the slide wells.\n* `Spot Volume`: Specify the volume of each dot.\n* `Aspiration Flow Rate`: Specify the aspiration rate. A value of 1 is the default rate, a value of 1.2 is a 20% increase of the default rate, a value of 0.5 is half of the default rate.\n* `Dispense Flow Rate`: Specify the dispense rate. A value of 1 is the default rate, a value of 1.2 is a 20% increase of the default rate, a value of 0.5 is half of the default rate.\n* `P20 Single-Channel Mount`: Specify which mount (left or right) to host the P20 single-channel pipette.\n\n\n\n\n---\n\n\n",

protoBuilds/007992/README.json

@@ -1,5 +1,5 @@
 {
-    "author": "Opentrons\nOpentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. Submit a request to add this protocol to the new library.",
+    "author": "Opentrons",
     "categories": {
         "Nucleic Acid Extraction & Purification": [
             "Viral RNA"
@@ -8,7 +8,7 @@
     "description": "This protocol automates a 3-wash RNA isolation using magnetic beads and a magnetic module GEN2. Purified elutions are transferred to a 384 well plate mounted on a temperature module GEN2.\n\n\nTo purchase tips, reagents, or pipettes, please visit our online store or contact our sales team at [email protected]\n\nOpentrons OT-2\nOpentrons P300 GEN2 Multi-Channel Pipette\nOpentrons P20 GEN2 Single-Channel Pipette\nOpentrons 20uL and 200\u00b5L Filter Tips\nUSA Scientific 12-Well Reservoir, 22ml\nUSA Scientific 96-Deepwell Plate, 2.4mL #1896-2000\nCole Parmer 384-Well Plate, 50uL\n\n",
     "internal": "007992",
     "markdown": {
-        "author": "[Opentrons](https://opentrons.com/)\n\n\n# Opentrons has launched a new Protocol Library. This page won\u2019t be available after January 31st, 2024. [Submit a request](https://docs.google.com/forms/d/e/1FAIpQLSdYYp9QCKow4nn0KlCVsMS3HX0eJ0N9O7-erajKvcpT0lWbSg/viewform) to add this protocol to the new library.\n\n",
+        "author": "[Opentrons](https://opentrons.com/)\n\n\n\n",
         "categories": "* Nucleic Acid Extraction & Purification\n\t* Viral RNA\n\n",
         "description": "This protocol automates a 3-wash RNA isolation using magnetic beads and a magnetic module GEN2. Purified elutions are transferred to a 384 well plate mounted on a temperature module GEN2.\n\n---\n![Materials Needed](https://s3.amazonaws.com/opentrons-protocol-library-website/custom-README-images/001-General+Headings/materials.png)\n\nTo purchase tips, reagents, or pipettes, please visit our [online store](https://shop.opentrons.com/) or contact our sales team at [[email protected]](mailto:[email protected])\n\n* [Opentrons OT-2](https://shop.opentrons.com/collections/ot-2-robot/products/ot-2)\n* [Opentrons P300 GEN2 Multi-Channel Pipette](https://shop.opentrons.com/collections/ot-2-pipettes/products/8-channel-electronic-pipette)\n* [Opentrons P20 GEN2 Single-Channel Pipette](https://shop.opentrons.com/collections/ot-2-pipettes/products/single-channel-electronic-pipette)\n* [Opentrons 20uL and 200\u00b5L Filter Tips](https://shop.opentrons.com/collections/opentrons-tips)\n* [USA Scientific 12-Well Reservoir, 22ml](https://www.usascientific.com/12-channel-automation-reservoir/p/1061-8150)\n* [USA Scientific 96-Deepwell Plate, 2.4mL #1896-2000](https://www.usascientific.com/plateone-96-deep-well-2ml/p/PlateOne-96-Deep-Well-2mL)\n* Cole Parmer 384-Well Plate, 50uL\n\n---\n\n",
         "internal": "007992\n",