Python library for generating Autoprotocol for the OpenTrons OT.one.
Based off of Autoprotocol-python library.
$ git clone https://github.com/peteryin21/otprotocol
$ cd otprotocol
$ sudo python setup.py install
$ python demo_ot.py
import json
from otprotocol.protocol import Protocol, Head
#instantiate new Protocol object
p = Protocol()
#create head object
p200 = Head( "p200", #name
{#opts
"tool" : "pipette",
"tip-racks" : [{"container":"p200-rack"}],
"trash-container" : {"container":"trash"},
"multi-channel" : True,
"axis" : "a",
"volume" : 250,
"down-plunger-speed" : 300,
"up-plunger-speed" : 500,
"tip-plunge" : 8,
"extra-pull-volume" : 20,
"extra-pull-delay" : 200,
"distribute-percentage" : 0.1,
"points" : [{"f1": 10,"f2": 6},{"f1": 25,"f2": 23},{"f1": 50,"f2": 49},{"f1": 200,"f2": 200}]
}
)
#append decks to Protocol object
p200_rack = p.deck("p200-rack", labware="tiprack-200ul")
trough = p.deck("trough", labware="trough-12row")
plate_1 = p.deck("plate-1", labware="96-flat")
plate_2 = p.deck("plate-2", labware="96-flat")
trash = p.deck("trash", labware="point")
#add ingredients
p.add_ingredient("ReagentA", "Reagents-1", "A3", 25000)
#add head object to protocol
p.set_head(p200)
#append instructions
p.transfer("trough","A1","plate-1","A1",100)
p.transfer("trough", ["A1","A2"],"plate-1", ["B1","B2"],[100,20])
p.distribute("trough","A1","plate-1",["A1","A2","A3"],[20, 30, 100])
p.consolidate("plate-1",["A1","A2","A3"],"plate-2","A1",[20, 30, 100])
p.mix("plate-2", "A1", 20)
print json.dumps(p.as_dict(), indent=2)This produces the following JSON:
{
"head": {
"p200": {
"extra-pull-delay": 200,
"tool": "pipette",
"up-plunger-speed": 500,
"multi-channel": true,
"volume": 250,
"trash-container": {
"container": "trash"
},
"distribute-percentage": 0.1,
"axis": "a",
"extra-pull-volume": 20,
"tip-plunge": 8,
"tip-racks": [
{
"container": "p200-rack"
}
],
"points": [
{
"f1": 10,
"f2": 6
},
{
"f1": 25,
"f2": 23
},
{
"f1": 50,
"f2": 49
},
{
"f1": 200,
"f2": 200
}
],
"down-plunger-speed": 300
}
},
"deck": {
"trash": {
"labware": "point"
},
"p200-rack": {
"labware": "tiprack-200ul"
},
"trough": {
"labware": "trough-12row"
},
"plate-2": {
"labware": "96-flat"
},
"plate-1": {
"labware": "96-flat"
}
},
"ingredients": {
"ReagentA": [
{
"container": "Reagents-1",
"location": "A3",
"volume": 25000
}
]
},
"instructions": [
{
"tool": "p200",
"groups": [
{
"transfer": [
{
"from": {
"delay": 2000,
"touch-tip": true,
"tip-offset": -2,
"container": "trough",
"location": "A1"
},
"to": {
"touch-tip": true,
"container": "plate-1",
"location": "A1"
},
"volume": 100,
"blowout": true,
"extra-pull": true
}
]
},
{
"transfer": [
{
"from": {
"delay": 2000,
"touch-tip": true,
"tip-offset": -2,
"container": "trough",
"location": "A1"
},
"to": {
"touch-tip": true,
"container": "plate-1",
"location": "B1"
},
"volume": 100,
"blowout": true,
"extra-pull": true
},
{
"from": {
"delay": 2000,
"touch-tip": true,
"tip-offset": -2,
"container": "trough",
"location": "A2"
},
"to": {
"touch-tip": true,
"container": "plate-1",
"location": "B2"
},
"volume": 20,
"blowout": true,
"extra-pull": true
}
]
},
{
"distribute": {
"from": {
"container": "trough",
"location": "A1"
},
"to": [
{
"container": "plate-1",
"location": "A1",
"volume": 20,
"touch-tip": true
},
{
"container": "plate-1",
"location": "A2",
"volume": 30,
"touch-tip": true
},
{
"container": "plate-1",
"location": "A3",
"volume": 100,
"touch-tip": true
}
],
"blowout": true
}
},
{
"consolidate": {
"from": [
[
{
"container": "plate-1",
"location": "A1",
"volume": 20,
"touch-tip": true
},
{
"container": "plate-1",
"location": "A2",
"volume": 30,
"touch-tip": true
},
{
"container": "plate-1",
"location": "A3",
"volume": 100,
"touch-tip": true
}
]
],
"to": {
"container": "plate-2",
"location": "A1"
},
"blowout": true
}
},
{
"mix": [
{
"container": "plate-2",
"location": "A1",
"volume": 20,
"repetitions": 5,
"blowout": true,
"liquid-tracking": true
}
]
}
]
}
]
}