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github.com/Bioprotocols/labop

Laboratory Open Protocol (LabOP) Language
https://github.com/Bioprotocols/labop

ignore

31d13f1edc310b0d31f3d5fc8fa13c2faa9bd3c9 authored about 2 years ago by Daniel Bryce <[email protected]>
Merge pull request #171 from Bioprotocols/fix_ph_calibration

Fix pH calibration notebook

38d8e2cc4d70185946919a27e2aa4dc7cd59f520 authored about 2 years ago by Daniel Bryce <[email protected]>
simplify toy opentrons protocol

365f471a5bc779e88e1fab610a2d50987390be4f authored about 2 years ago by Daniel Bryce <[email protected]>
The compute_output handlers for pH calibration now accept sample_format argument similar to other compute_output methods

f1eeaca115a48bbfa6d0c34b5fabf763d763c400 authored about 2 years ago by Bryan Bartley <[email protected]>
Merge pull request #170 from Bioprotocols/opentrons-nb

Opentrons-nb

aa814a1a124e60b0d91f2caa30d75663c14e8705 authored about 2 years ago by Daniel Bryce <[email protected]>
fixed paths in test

80bc9e3e276f93bd81c43d4779b93de893e997a7 authored about 2 years ago by Daniel Bryce <[email protected]>
fix newline in rubric

cfb022452e0d701329f25b2b77b8f11adb26ea48 authored about 2 years ago by Daniel Bryce <[email protected]>
cleanup output

23352a319bf5ef9aa820f7139647232882673dfc authored about 2 years ago by Daniel Bryce <[email protected]>
working example

44e5dac32d09ec0076ad4bcb6e53efdb4e5c486d authored about 2 years ago by Daniel Bryce <[email protected]>
Merge remote-tracking branch 'origin/igem_tests' into opentrons-nb

ad7235c71579c5823ac2341050c124d38272c6f9 authored about 2 years ago by Daniel Bryce <[email protected]>
update wrt cont-ont ignores

295ea1d3dadfb9511cc1f218e0e336b6f5885059 authored about 2 years ago by Daniel Bryce <[email protected]>
setup toy opentrons tests

b2daa25e0acd82f50e32703c2fae309ea7c70f13 authored about 2 years ago by Daniel Bryce <[email protected]>
Merge commit 'fdd48e3f09fd62955a89dd5d929a5d7d61929278'

ec8b9a84f23aae1667e912cd641db0ca25ef1e74 authored about 2 years ago by Daniel Bryce <[email protected]>
remove dev install

fdd48e3f09fd62955a89dd5d929a5d7d61929278 authored about 2 years ago by Daniel Bryce <[email protected]>
ignore

fa433302e3208f85659c802cf4567abfa30c6354 authored about 2 years ago by Daniel Bryce <[email protected]>
Render names not URIs in reporting step

817b26ccbe8bebee75a1738d44e75af39878419a authored about 2 years ago by Bryan Bartley <[email protected]>
Add test for iGEM protocols

e305663d9c9774cc251e72de4589e413d665af0e authored about 2 years ago by Bryan Bartley <[email protected]>
Update decision nodes test to support sample format

bc6e3a92ab837d942436c4a9e3cd930cb2caf155 authored about 2 years ago by Bryan Bartley <[email protected]>
Render names not URIs in reporting step

91db87850440ac6aa8d61bc9b168b8696f54d32d authored about 2 years ago by Bryan Bartley <[email protected]>
Initialize sample contents for some Primitives that are not predefined

b4dfe978fdf83327f2dcd95dbc863145b4728be6 authored about 2 years ago by Bryan Bartley <[email protected]>
Simplify lookups of source SampleArray from SampleMask

6cc2f04df05784e8bd2bbc39bdadddeb1e53b26f authored about 2 years ago by Bryan Bartley <[email protected]>
Pre-defined primitives now initialize sample contents based on user-specified format

817bfd7c606cdf7b96c59f45ee716fa2534051d4 authored about 2 years ago by Bryan Bartley <[email protected]>
Support user selection of sample contents format for SampleArrays

f68d6592e7602835c4d208d33ae455967bb8aef6 authored about 2 years ago by Bryan Bartley <[email protected]>
Fix import style

f854eb3a154afe48e3e4a375f1307169612b01d3 authored about 2 years ago by Bryan Bartley <[email protected]>
Clean up

b603fb089162d5e71f6d9e2b49fbf3c05c996e7c authored about 2 years ago by Bryan Bartley <[email protected]>
Revert testfile

3c22c5529ba7bc2f0ddd89046dd15f3ee35083ae authored about 2 years ago by Bryan Bartley <[email protected]>
Support refactor of ContainerSpec as a subclass of TopLevel

9b637c5e9db6b3b1f8f419e8e44d460f9eae9ec5 authored about 2 years ago by Bryan Bartley <[email protected]>
ignore

e807e5fb3544fc41b2cb5db7913210f9cfd49bbf authored about 2 years ago by Daniel Bryce <[email protected]>
fix tests

a9f4a32462d3ac8c3313a5a96593715f6ee225c4 authored about 2 years ago by Daniel Bryce <[email protected]>
fixed tests

c786c8d235ccb0f916c62f96fd78843eb7e60a14 authored about 2 years ago by Daniel Bryce <[email protected]>
ignore

16c30bda3e72d5fb01433717dd3108fc3ae7707b authored about 2 years ago by Daniel Bryce <[email protected]>
rename contents

bfd697a361454c83c7bc0eab21323a7a082f87be authored about 2 years ago by Daniel Bryce <[email protected]>
rename files

2899c63700d2a87869a7c067e6f67a7f890ca3db authored about 2 years ago by Daniel Bryce <[email protected]>
Merge pull request #153 from Bioprotocols/ee-refactor

Ee-refactor

8383484a862deae7273643f4712b636d7a49a47a authored about 2 years ago by Daniel Bryce <[email protected]>
Merge pull request #164 from Bioprotocols/compute_output

Compute output

5abbb98f430dc761fecd18c249cdc142fb0cf22c authored about 2 years ago by Daniel Bryce <[email protected]>
add switch to use or not the compute_output defs

ccd6cf9915f8e25cde5c580e978046e66ec4fcba authored about 2 years ago by Daniel Bryce <[email protected]>
fixup ph calibration notebook

9dc3c6bf0d2881fdacf0fa0aba08f241f35c3d77 authored about 2 years ago by Daniel Bryce <[email protected]>
debug test fail

e78426cad131c53cd5f95ebeec634bc0c287b794 authored about 2 years ago by Daniel Bryce <[email protected]>
save artifact

382c5138c14da60c2734e5575b76a4ae76487d9a authored about 2 years ago by Daniel Bryce <[email protected]>
ignores

535b27ba11fa701be788531e1273b4b787d1eeb8 authored about 2 years ago by Daniel Bryce <[email protected]>
unpin deps

7e5e88c109076f72ff81e26c4d60dd2d42982e7c authored about 2 years ago by Daniel Bryce <[email protected]>
comment out writing test rubric

876039f912dd1bfa3e5636ddec28d8565e274cef authored about 2 years ago by Daniel Bryce <[email protected]>
Working PCR example

76a7e793ec78aaf20e3a63ae76bb832512c2c8e8 authored about 2 years ago by Bryan Bartley <[email protected]>
Coordinates should be returned packed in a list

0e35f5e12b01babe73eb61b0b38880eee054c3c7 authored about 2 years ago by Bryan Bartley <[email protected]>
Opentrons PCR example

714e7ef7eb2f0a4a41c2635f8fcb082c1dd1c980 authored about 2 years ago by Bryan Bartley <[email protected]>
String representation of a Primitive now includes a description of its semantics

a207e5c80107a84dcfdde8eeaa32500797084347 authored about 2 years ago by Bryan Bartley <[email protected]>
Allow unlinked output pins

b28fd433e0a70fbcdf9cd4594ba340360fe372b2 authored about 2 years ago by Bryan Bartley <[email protected]>
fix unbound i/o parameter check

e6842c53e02394dde47ff17a639c6837285628e4 authored about 2 years ago by Daniel Bryce <[email protected]>
Fix errors dereferencing ValueSpecifications

4fa0036bb341435d4b170f5a3beba0a251f5c3c4 authored about 2 years ago by Bryan Bartley <[email protected]>
Support refactor of ContainerSpec to TopLevel

8476882b1b3273a7923648d1b51bc0ba9246652c authored about 2 years ago by Bryan Bartley <[email protected]>
Revert primitive handler back to using two positional arguments instead of one

7b9bcaf7b459c84640c15c3b41fc373326108ec0 authored about 2 years ago by Bryan Bartley <[email protected]>
Better exception handling by execution engine

0bff7b74fb8f6dfa8aaee5db96c83de6e6ad4abb authored about 2 years ago by Bryan Bartley <[email protected]>
Support refactor of ContainerSpec to TopLevel

1441397685a425757d5bb71797d1ddeac3fb9f8b authored about 2 years ago by Bryan Bartley <[email protected]>
Support refactor of ContainerSpec to TopLevel

fafed43e6b0d9513f01479dae9b0a3677631c64c authored about 2 years ago by Bryan Bartley <[email protected]>
Add owl_rdf_utils to setup

c3b6ae54566847a24a4f5b378a77c60269775cda authored about 2 years ago by Bryan Bartley <[email protected]>
Add xarray package to setup

1487c20c3c1491c112029dbbb7e3c8cb382325de authored about 2 years ago by Bryan Bartley <[email protected]>
Update testfiles

025a9ffb271152bbeda316626a9a09e6b727705b authored about 2 years ago by Bryan Bartley <[email protected]>
Refactor #125

c6acb657ccce229918791378b2cf2659d84ba178 authored about 2 years ago by Bryan Bartley <[email protected]>
Fix incorrect invocation of primitive handler

1f9a9cc9a2693e9bbea6c1de6a97968c157c76fc authored about 2 years ago by Bryan Bartley <[email protected]>
Support refactor of ContainerSpec to TopLevel

f2b106c8e6e2972cb290264ea9cce1568b2cd65d authored about 2 years ago by Bryan Bartley <[email protected]>
Uncomment test code

dc1b9482a373a170e002d14093cc6a5c47a9bdb8 authored about 2 years ago by Bryan Bartley <[email protected]>
Fix test failing because of unlinked output pin, related to #163

3c7eecd27419a432232bbbc27bcf3c3635b56b5d authored about 2 years ago by Bryan Bartley <[email protected]>
Test for #157

d7bdb1fc9446664083e92694941a4c25b3c4bacf authored about 2 years ago by Bryan Bartley <[email protected]>
Resolve #163 catch unlinked output pins

01599216428889bfcebe199d5c5a04ed7bf2307d authored about 2 years ago by Bryan Bartley <[email protected]>
handle_process_failure raises an Exception, but execution will still continue if failsafe is enabled

d5023be9d4d92fde3073dcdf1f1d369596493051 authored about 2 years ago by Bryan Bartley <[email protected]>
specialization updates for pamled

1d9d88d6c79c7b4b4ca0f4343f6440810678ddea authored over 2 years ago by Daniel Bryce <[email protected]>
updated input types and fixed merge issues

59798d80a2519513783a1df4155c58aef641589d authored over 2 years ago by Daniel Bryce <[email protected]>
Merge remote-tracking branch 'origin/opentrons' into ee-refactor

cf26f962bac71e7b0eaf4d7ef9bb733275d530bd authored over 2 years ago by Daniel Bryce <[email protected]>
stabilize after rebase and specialization support

616bb69bd79a7d53d561c22eb901fd42bd5a0682 authored over 2 years ago by Daniel Bryce <[email protected]>
Add support for opentrons hardware modules

dd82cd088b1881ae052e77d40acf8d9512a842d1 authored over 2 years ago by Bryan Bartley <[email protected]>
Resolve #157

e49fbebe2f2658087b6589f4b419ec463fc0d556 authored over 2 years ago by Bryan Bartley <[email protected]>
Include more protocol metadata in output script, because the machine complains without it

6813033559bfdf9a9cbb6f2c7b9f41dc4c73c70f authored over 2 years ago by Bryan Bartley <[email protected]>
Fixed source and destination containers mix-up

20c2dab587ef957875d8bf2ff8f5669d40282b6f authored over 2 years ago by Bryan Bartley <[email protected]>
Working example

d003b0c7086028b52c0e15d8d709939d79a99558 authored over 2 years ago by Bryan Bartley <[email protected]>
checked rubrics

efff423fa8540dbca96354790a4ea2b6d7e25af3 authored over 2 years ago by Daniel Bryce <[email protected]>
fixed tests after rebasing, need to verify rubrics

0c9df3396b4e6fa5a1296db4d0415554663af268 authored over 2 years ago by Daniel Bryce <[email protected]>
Merge branch 'opentrons' of github.com:Bioprotocols/paml into opentrons

89a25a9e44fc122dc13fe0c20b77f34699a0d503 authored over 2 years ago by Bryan Bartley <[email protected]>
Fix #152

0e48be867a591728e8351b345d7165361e52cd19 authored over 2 years ago by Bryan Bartley <[email protected]>
Fix get_aliquot_list breaking when single well coordinate is used instead of range

252b381433a9e6e39734d23b478454c7303588cc authored over 2 years ago by Bryan Bartley <[email protected]>
Merge pull request #148 from Bioprotocols/interlab_protocol

Interlab protocol

e1f3bbf849f3bf9825563cef63a2d51ec045e0d1 authored over 2 years ago by bbartley <[email protected]>
fix rebasing discrepancies

9b97fedcaab633cce999070184e483e41deb1c1a authored over 2 years ago by Daniel Bryce <[email protected]>
ignore jekyll stuff

75bbf339c1851ccba718bd308ab73ec0dc670074 authored over 2 years ago by Daniel Bryce <[email protected]>
Support json output for execution

8002644cdce93990b4170d171c05e7627a4a3096 authored over 2 years ago by Daniel Bryce <[email protected]>
WIP protocol execution and serialization for json

2a2db8b74b388ee39bc5750deb6c2f97bd846071 authored over 2 years ago by Daniel Bryce <[email protected]>
permissive execution and tweak specialization api

0c30d252eb13b43effcb6bee05075d4ff4728ff9 authored over 2 years ago by Daniel Bryce <[email protected]>
unused import

5351b7ca22ede54338457ade8367b7bc0d976662 authored over 2 years ago by Daniel Bryce <[email protected]>
local version of notebook

ffde26d14f0865ee744fdfb3f9bd05c5b251768c authored over 2 years ago by Daniel Bryce <[email protected]>
execution demo

0b75981b1697f595f7230a7bfa0c838578b5fcf4 authored over 2 years ago by Daniel Bryce <[email protected]>
remove old ee funcs

1fb8efaf06024b555eee4df2c81fd9af79e6abf0 authored over 2 years ago by Daniel Bryce <[email protected]>
examples as package, remove old ee funcs

a90dfeac1710cd368179e58d89b6bd0542e6bf52 authored over 2 years ago by Daniel Bryce <[email protected]>
refactored ee

35b0e0f8d08467600d5f7a37cdce7f43187f7b2e authored over 2 years ago by Daniel Bryce <[email protected]>
fixes for graphviz w/ subprotocols

55fea5f1ed42006479e0e567de908b132f95e0e0 authored over 2 years ago by Daniel Bryce <[email protected]>
working ph execution

f2eb399e06fc9a5b800054552e04ca9fb5d078d5 authored over 2 years ago by Daniel Bryce <[email protected]>
execution engine support for ph protocol

bd247fe6815e92b10e200db6c7ed7c7bba2fa099 authored over 2 years ago by Daniel Bryce <[email protected]>
execution engine support for ph protocol

43c145cd17d3453635ef049014f1e3d03b9906a1 authored over 2 years ago by Daniel Bryce <[email protected]>
checkpoint w/ subprotocol

ef48cc612d58aaadaa4fa7c64be7480738592f69 authored over 2 years ago by Daniel Bryce <[email protected]>
refactor

c1b03e9af4c95764e5c89cd746b309c4c8f9f07d authored over 2 years ago by Daniel Bryce <[email protected]>
rough draft

f78798f5e77363313cb857ba03740216b46ecf27 authored over 2 years ago by Daniel Bryce <[email protected]>
formatting

4f06931e76be5556a54d0d42874d4b4d589d4cf5 authored over 2 years ago by Daniel Bryce <[email protected]>
checkpoint

b97548d7184289e48ba722ef5c7e824c728a72d2 authored over 2 years ago by Daniel Bryce <[email protected]>