opentrons 8.5.1a2__tar.gz → 8.8.0a9__tar.gz

opentrons-8.8.0a9/.flake8

@@ -0,0 +1,67 @@
+[flake8]
+
+extend-exclude = venv .venv
+
+# max cyclomatic complexity
+max-complexity = 9
+
+extend-ignore =
+    # defer formatting concerns to black
+    # E203: space around `:` operator
+    # E501: maximum line length
+    E203,
+    E501,
+    # do not require type annotations for self nor cls
+    ANN101,
+    ANN102
+    # do not require docstring for __init__, put them on the class
+    D107,
+    # Don't forbid the function signature from being mentioned in the first line of the
+    # docstring. It tends to raise false positives when referring to other functions.
+    D402,
+
+# configure flake8-docstrings
+# https://pypi.org/project/flake8-docstrings/
+docstring-convention = google
+
+noqa-require-code = true
+
+# TODO(mc, 2020-11-06): this config ignores type annotation and doc
+# string lints in these modules; remove entries as they are fixed
+per-file-ignores =
+    setup.py:ANN,D
+    src/opentrons/__init__.py:ANN,D
+    src/opentrons/execute.py:ANN,D
+    src/opentrons/simulate.py:ANN,D
+    src/opentrons/types.py:ANN,D
+    src/opentrons/calibration_storage/*:ANN,D
+    src/opentrons/legacy_commands/*:D
+    src/opentrons/config/*:ANN,D
+    src/opentrons/drivers/*:ANN,D
+    src/opentrons/hardware_control/*:ANN,D
+    src/opentrons/protocol_api/*:ANN,D
+    src/opentrons/protocols/*:ANN,D
+    src/opentrons/resources/*:ANN,D
+    src/opentrons/system/*:ANN,D
+    src/opentrons/tools/*:ANN,D
+    src/opentrons/util/async_helpers.py:ANN,D
+    src/opentrons/util/logging_config.py:ANN,D
+    src/opentrons/util/linal.py:ANN,D
+    src/opentrons/util/entrypoint_util.py:ANN,D
+    src/opentrons/util/helpers.py:ANN,D
+    tests/opentrons/test_init.py:ANN,D
+    tests/opentrons/test_types.py:ANN,D
+    tests/opentrons/conftest.py:ANN,D
+    tests/opentrons/calibration_storage/*:ANN,D
+    tests/opentrons/legacy_commands/*:ANN,D
+    tests/opentrons/config/*:ANN,D
+    tests/opentrons/data/*:ANN,D
+    tests/opentrons/drivers/*:ANN,D
+    tests/opentrons/hardware_control/*:ANN,D
+    tests/opentrons/protocol_api_old/*:ANN,D
+    tests/opentrons/protocols/*:ANN,D
+    tests/opentrons/system/*:ANN,D
+    tests/opentrons/tools/*:ANN,D
+    tests/opentrons/util/test_async_helpers.py:ANN,D
+    tests/opentrons/util/test_linal.py:ANN,D
+    tests/opentrons/util/test_entrypoint_util.py:ANN,D

opentrons-8.8.0a9/.gitignore

@@ -0,0 +1,7 @@
+*.py[cod]
+*.egg
+build
+htmlcov
+
+src/opentrons/_version.py
+tests/**/*.temp

opentrons-8.8.0a9/LICENSE

@@ -0,0 +1,202 @@
+
+                                 Apache License
+                           Version 2.0, January 2004
+                        http://www.apache.org/licenses/
+
+   TERMS AND CONDITIONS FOR USE, REPRODUCTION, AND DISTRIBUTION
+
+   1. Definitions.
+
+      "License" shall mean the terms and conditions for use, reproduction,
+      and distribution as defined by Sections 1 through 9 of this document.
+
+      "Licensor" shall mean the copyright owner or entity authorized by
+      the copyright owner that is granting the License.
+
+      "Legal Entity" shall mean the union of the acting entity and all
+      other entities that control, are controlled by, or are under common
+      control with that entity. For the purposes of this definition,
+      "control" means (i) the power, direct or indirect, to cause the
+      direction or management of such entity, whether by contract or
+      otherwise, or (ii) ownership of fifty percent (50%) or more of the
+      outstanding shares, or (iii) beneficial ownership of such entity.
+
+      "You" (or "Your") shall mean an individual or Legal Entity
+      exercising permissions granted by this License.
+
+      "Source" form shall mean the preferred form for making modifications,
+      including but not limited to software source code, documentation
+      source, and configuration files.
+
+      "Object" form shall mean any form resulting from mechanical
+      transformation or translation of a Source form, including but
+      not limited to compiled object code, generated documentation,
+      and conversions to other media types.
+
+      "Work" shall mean the work of authorship, whether in Source or
+      Object form, made available under the License, as indicated by a
+      copyright notice that is included in or attached to the work
+      (an example is provided in the Appendix below).
+
+      "Derivative Works" shall mean any work, whether in Source or Object
+      form, that is based on (or derived from) the Work and for which the
+      editorial revisions, annotations, elaborations, or other modifications
+      represent, as a whole, an original work of authorship. For the purposes
+      of this License, Derivative Works shall not include works that remain
+      separable from, or merely link (or bind by name) to the interfaces of,
+      the Work and Derivative Works thereof.
+
+      "Contribution" shall mean any work of authorship, including
+      the original version of the Work and any modifications or additions
+      to that Work or Derivative Works thereof, that is intentionally
+      submitted to Licensor for inclusion in the Work by the copyright owner
+      or by an individual or Legal Entity authorized to submit on behalf of
+      the copyright owner. For the purposes of this definition, "submitted"
+      means any form of electronic, verbal, or written communication sent
+      to the Licensor or its representatives, including but not limited to
+      communication on electronic mailing lists, source code control systems,
+      and issue tracking systems that are managed by, or on behalf of, the
+      Licensor for the purpose of discussing and improving the Work, but
+      excluding communication that is conspicuously marked or otherwise
+      designated in writing by the copyright owner as "Not a Contribution."
+
+      "Contributor" shall mean Licensor and any individual or Legal Entity
+      on behalf of whom a Contribution has been received by Licensor and
+      subsequently incorporated within the Work.
+
+   2. Grant of Copyright License. Subject to the terms and conditions of
+      this License, each Contributor hereby grants to You a perpetual,
+      worldwide, non-exclusive, no-charge, royalty-free, irrevocable
+      copyright license to reproduce, prepare Derivative Works of,
+      publicly display, publicly perform, sublicense, and distribute the
+      Work and such Derivative Works in Source or Object form.
+
+   3. Grant of Patent License. Subject to the terms and conditions of
+      this License, each Contributor hereby grants to You a perpetual,
+      worldwide, non-exclusive, no-charge, royalty-free, irrevocable
+      (except as stated in this section) patent license to make, have made,
+      use, offer to sell, sell, import, and otherwise transfer the Work,
+      where such license applies only to those patent claims licensable
+      by such Contributor that are necessarily infringed by their
+      Contribution(s) alone or by combination of their Contribution(s)
+      with the Work to which such Contribution(s) was submitted. If You
+      institute patent litigation against any entity (including a
+      cross-claim or counterclaim in a lawsuit) alleging that the Work
+      or a Contribution incorporated within the Work constitutes direct
+      or contributory patent infringement, then any patent licenses
+      granted to You under this License for that Work shall terminate
+      as of the date such litigation is filed.
+
+   4. Redistribution. You may reproduce and distribute copies of the
+      Work or Derivative Works thereof in any medium, with or without
+      modifications, and in Source or Object form, provided that You
+      meet the following conditions:
+
+      (a) You must give any other recipients of the Work or
+          Derivative Works a copy of this License; and
+
+      (b) You must cause any modified files to carry prominent notices
+          stating that You changed the files; and
+
+      (c) You must retain, in the Source form of any Derivative Works
+          that You distribute, all copyright, patent, trademark, and
+          attribution notices from the Source form of the Work,
+          excluding those notices that do not pertain to any part of
+          the Derivative Works; and
+
+      (d) If the Work includes a "NOTICE" text file as part of its
+          distribution, then any Derivative Works that You distribute must
+          include a readable copy of the attribution notices contained
+          within such NOTICE file, excluding those notices that do not
+          pertain to any part of the Derivative Works, in at least one
+          of the following places: within a NOTICE text file distributed
+          as part of the Derivative Works; within the Source form or
+          documentation, if provided along with the Derivative Works; or,
+          within a display generated by the Derivative Works, if and
+          wherever such third-party notices normally appear. The contents
+          of the NOTICE file are for informational purposes only and
+          do not modify the License. You may add Your own attribution
+          notices within Derivative Works that You distribute, alongside
+          or as an addendum to the NOTICE text from the Work, provided
+          that such additional attribution notices cannot be construed
+          as modifying the License.
+
+      You may add Your own copyright statement to Your modifications and
+      may provide additional or different license terms and conditions
+      for use, reproduction, or distribution of Your modifications, or
+      for any such Derivative Works as a whole, provided Your use,
+      reproduction, and distribution of the Work otherwise complies with
+      the conditions stated in this License.
+
+   5. Submission of Contributions. Unless You explicitly state otherwise,
+      any Contribution intentionally submitted for inclusion in the Work
+      by You to the Licensor shall be under the terms and conditions of
+      this License, without any additional terms or conditions.
+      Notwithstanding the above, nothing herein shall supersede or modify
+      the terms of any separate license agreement you may have executed
+      with Licensor regarding such Contributions.
+
+   6. Trademarks. This License does not grant permission to use the trade
+      names, trademarks, service marks, or product names of the Licensor,
+      except as required for reasonable and customary use in describing the
+      origin of the Work and reproducing the content of the NOTICE file.
+
+   7. Disclaimer of Warranty. Unless required by applicable law or
+      agreed to in writing, Licensor provides the Work (and each
+      Contributor provides its Contributions) on an "AS IS" BASIS,
+      WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or
+      implied, including, without limitation, any warranties or conditions
+      of TITLE, NON-INFRINGEMENT, MERCHANTABILITY, or FITNESS FOR A
+      PARTICULAR PURPOSE. You are solely responsible for determining the
+      appropriateness of using or redistributing the Work and assume any
+      risks associated with Your exercise of permissions under this License.
+
+   8. Limitation of Liability. In no event and under no legal theory,
+      whether in tort (including negligence), contract, or otherwise,
+      unless required by applicable law (such as deliberate and grossly
+      negligent acts) or agreed to in writing, shall any Contributor be
+      liable to You for damages, including any direct, indirect, special,
+      incidental, or consequential damages of any character arising as a
+      result of this License or out of the use or inability to use the
+      Work (including but not limited to damages for loss of goodwill,
+      work stoppage, computer failure or malfunction, or any and all
+      other commercial damages or losses), even if such Contributor
+      has been advised of the possibility of such damages.
+
+   9. Accepting Warranty or Additional Liability. While redistributing
+      the Work or Derivative Works thereof, You may choose to offer,
+      and charge a fee for, acceptance of support, warranty, indemnity,
+      or other liability obligations and/or rights consistent with this
+      License. However, in accepting such obligations, You may act only
+      on Your own behalf and on Your sole responsibility, not on behalf
+      of any other Contributor, and only if You agree to indemnify,
+      defend, and hold each Contributor harmless for any liability
+      incurred by, or claims asserted against, such Contributor by reason
+      of your accepting any such warranty or additional liability.
+
+   END OF TERMS AND CONDITIONS
+
+   APPENDIX: How to apply the Apache License to your work.
+
+      To apply the Apache License to your work, attach the following
+      boilerplate notice, with the fields enclosed by brackets "[]"
+      replaced with your own identifying information. (Don't include
+      the brackets!)  The text should be enclosed in the appropriate
+      comment syntax for the file format. We also recommend that a
+      file or class name and description of purpose be included on the
+      same "printed page" as the copyright notice for easier
+      identification within third-party archives.
+
+   Copyright [yyyy] [name of copyright owner]
+
+   Licensed under the Apache License, Version 2.0 (the "License");
+   you may not use this file except in compliance with the License.
+   You may obtain a copy of the License at
+
+       http://www.apache.org/licenses/LICENSE-2.0
+
+   Unless required by applicable law or agreed to in writing, software
+   distributed under the License is distributed on an "AS IS" BASIS,
+   WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+   See the License for the specific language governing permissions and
+   limitations under the License.

opentrons-8.8.0a9/PKG-INFO

@@ -0,0 +1,37 @@
+Metadata-Version: 2.4
+Name: opentrons
+Version: 8.8.0a9
+Summary: The Opentrons API is a simple framework designed to make writing automated biology lab protocols easy.
+Project-URL: opentrons.com, https://www.opentrons.com
+Project-URL: Source Code On Github, https://github.com/Opentrons/opentrons/tree/edge/api
+Project-URL: Documentation, https://docs.opentrons.com
+Author-email: Opentrons <engineering@opentrons.com>
+License-Expression: Apache-2.0
+License-File: LICENSE
+Keywords: automation,lab,pcr,protocols,robots,synbio
+Classifier: Development Status :: 5 - Production/Stable
+Classifier: Environment :: Console
+Classifier: Intended Audience :: Science/Research
+Classifier: Operating System :: OS Independent
+Classifier: Programming Language :: Python
+Classifier: Programming Language :: Python :: 3
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Topic :: Scientific/Engineering
+Requires-Python: >=3.10
+Requires-Dist: aionotify==0.3.1
+Requires-Dist: anyio<5.0.0,>=4.9.0
+Requires-Dist: click<9,>=8.0.0
+Requires-Dist: importlib-metadata>=1.0; python_version < '3.8'
+Requires-Dist: jsonschema<4.18.0,>=3.0.1
+Requires-Dist: numpy<2,>=1.20.0
+Requires-Dist: opentrons-shared-data==8.8.0a9
+Requires-Dist: packaging>=21.0
+Requires-Dist: pydantic-settings<3,>=2
+Requires-Dist: pydantic<3,>=2.0.0
+Requires-Dist: pyserial>=3.5
+Requires-Dist: pyusb==1.2.1
+Requires-Dist: typing-extensions<5,>=4.0.0
+Provides-Extra: flex-hardware
+Requires-Dist: opentrons-hardware[flex]==8.8.0a9; extra == 'flex-hardware'
+Provides-Extra: ot2-hardware
+Requires-Dist: opentrons-hardware==8.8.0a9; extra == 'ot2-hardware'

opentrons-8.8.0a9/Pipfile

@@ -0,0 +1,58 @@
+[[source]]
+url = "https://pypi.python.org/simple"
+verify_ssl = true
+name = "pypi"
+
+[packages]
+jsonschema = "==4.17.3"
+pydantic = "==2.11.7"
+pydantic-settings = "==2.4.0"
+anyio = "==4.9.0"
+opentrons-shared-data = { editable = true, path = "../shared-data" }
+opentrons = { editable = true, path = "." }
+opentrons-hardware = { editable = true, path = "./../hardware", extras=["FLEX"] }
+performance-metrics = {file = "../performance-metrics", editable = true}
+numpy = "==1.22.3"
+packaging = "==22.0"
+pyusb = "==1.2.1"
+# transitive dependency. 3.22 introduces a build plugin called coherent.licensed that
+# is not safe to have installed when another project is being built.
+zipp = "==3.21.0"
+
+[dev-packages]
+# atomicwrites and colorama are pytest dependencies on windows,
+# spec'd here to force lockfile inclusion
+# https://github.com/pypa/pipenv/issues/4408#issuecomment-668324177
+atomicwrites = { version = "==1.4.0", markers="sys_platform=='win32'" }
+colorama = { version = "==0.4.4", markers="sys_platform=='win32'" }
+coverage = "==7.4.1"
+mypy = "==1.11.0"
+numpydoc = "==0.9.1"
+pytest = "<9,>=8"
+pytest-asyncio = "<2,>=0.23.0"
+pytest-cov = "==4.1.0"
+pytest-xdist = "~=2.5.0"
+sphinx = "==5.0.1"
+twine = "==4.0.0"
+wheel = "==0.37.0"
+typeguard = "==4.1.5"
+sphinx-substitution-extensions = "==2020.9.30.0"
+sphinxext-opengraph = "==0.8.1"
+sphinx-tabs = ">=3.4.1,<4"
+mock = "==5.1.0"
+flake8 = "==7.0.0"
+flake8-annotations = "~=3.0.1"
+flake8-docstrings = "~=1.7.0"
+flake8-noqa = "~=1.4.0"
+decoy = "<3,>=2.2.0"
+black = "==22.3.0"
+types-mock = "~=5.1.0"
+types-setuptools = "==57.0.2"
+# specify typing-extensions explicitly to force lockfile inclusion on Python >= 3.8
+typing-extensions = ">=4.0.0,<5"
+pytest-profiling = "~=1.7.0"
+# TODO(mc, 2022-03-31): upgrade sphinx, remove this subdep pin
+jinja2 = ">=2.3,<3.1"
+hypothesis = "<7,>=6.96.1"
+build = "~=1.2.0"
+pytest-lazy-fixtures = "<2,>=1.1.4"