diff --git a/.github/workflows/main-deploy-docs.yml b/.github/workflows/main-deploy-docs.yml index 459ccc1c..b36cf607 100644 --- a/.github/workflows/main-deploy-docs.yml +++ b/.github/workflows/main-deploy-docs.yml @@ -12,7 +12,7 @@ jobs: # This workflow contains a single job called "build" build: # The type of runner that the job will run on - runs-on: ubuntu-18.04 + runs-on: ubuntu-20.04 # Steps represent a sequence of tasks that will be executed as part of the job steps: @@ -21,5 +21,6 @@ jobs: - name: Docs env: DOCS_TOKEN: ${{ secrets.DOCS_TOKEN }} + TIBANNA_VERSION: 2.2.0 run: curl -X POST -d "branches=master" -d "token=$DOCS_TOKEN" https://readthedocs.org/api/v2/webhook/tibanna/141616/ diff --git a/docs/requirements.txt b/docs/requirements.txt index a4decc70..c3c198a9 100755 --- a/docs/requirements.txt +++ b/docs/requirements.txt @@ -4,3 +4,5 @@ nose>=1.3 click>=6.6 git+https://github.com/golobor/sphinx-click sphinx_rtd_theme +tomlkit>=0.10.0 +semantic-version>=2.10.0 \ No newline at end of file diff --git a/poetry.lock b/poetry.lock index 6288d528..97ae246c 100644 --- a/poetry.lock +++ b/poetry.lock @@ -8,7 +8,7 @@ python-versions = "*" [[package]] name = "atomicwrites" -version = "1.4.0" +version = "1.4.1" description = "Atomic file writes." category = "dev" optional = false @@ -16,25 +16,25 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "attrs" -version = "21.4.0" +version = "22.1.0" description = "Classes Without Boilerplate" category = "dev" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" +python-versions = ">=3.5" [package.extras] -dev = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "zope.interface", "furo", "sphinx", "sphinx-notfound-page", "pre-commit", "cloudpickle"] -docs = ["furo", "sphinx", "zope.interface", "sphinx-notfound-page"] -tests = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "zope.interface", "cloudpickle"] -tests_no_zope = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "cloudpickle"] +dev = ["cloudpickle", "coverage[toml] (>=5.0.2)", "furo", "hypothesis", "mypy (>=0.900,!=0.940)", "pre-commit", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "sphinx", "sphinx-notfound-page", "zope.interface"] +docs = ["furo", "sphinx", "sphinx-notfound-page", "zope.interface"] +tests = ["cloudpickle", "coverage[toml] (>=5.0.2)", "hypothesis", "mypy (>=0.900,!=0.940)", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "zope.interface"] +tests_no_zope = ["cloudpickle", "coverage[toml] (>=5.0.2)", "hypothesis", "mypy (>=0.900,!=0.940)", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins"] [[package]] name = "babel" -version = "2.9.1" +version = "2.10.3" description = "Internationalization utilities" category = "dev" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +python-versions = ">=3.6" [package.dependencies] pytz = ">=2015.7" @@ -49,51 +49,51 @@ python-versions = "*" [[package]] name = "boto3" -version = "1.21.16" +version = "1.24.80" description = "The AWS SDK for Python" category = "main" optional = false -python-versions = ">= 3.6" +python-versions = ">= 3.7" [package.dependencies] -botocore = ">=1.24.16,<1.25.0" -jmespath = ">=0.7.1,<1.0.0" -s3transfer = ">=0.5.0,<0.6.0" +botocore = ">=1.27.80,<1.28.0" +jmespath = ">=0.7.1,<2.0.0" +s3transfer = ">=0.6.0,<0.7.0" [package.extras] crt = ["botocore[crt] (>=1.21.0,<2.0a0)"] [[package]] name = "botocore" -version = "1.24.16" +version = "1.27.80" description = "Low-level, data-driven core of boto 3." category = "main" optional = false -python-versions = ">= 3.6" +python-versions = ">= 3.7" [package.dependencies] -jmespath = ">=0.7.1,<1.0.0" +jmespath = ">=0.7.1,<2.0.0" python-dateutil = ">=2.1,<3.0.0" urllib3 = ">=1.25.4,<1.27" [package.extras] -crt = ["awscrt (==0.12.5)"] +crt = ["awscrt (==0.14.0)"] [[package]] name = "certifi" -version = "2021.10.8" +version = "2022.9.24" description = "Python package for providing Mozilla's CA Bundle." category = "main" optional = false -python-versions = "*" +python-versions = ">=3.6" [[package]] name = "charset-normalizer" -version = "2.0.12" +version = "2.1.1" description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet." category = "main" optional = false -python-versions = ">=3.5.0" +python-versions = ">=3.6.0" [package.extras] unicode_backport = ["unicodedata2"] @@ -108,7 +108,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" [[package]] name = "colorama" -version = "0.4.4" +version = "0.4.5" description = "Cross-platform colored terminal text." category = "dev" optional = false @@ -116,14 +116,14 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" [[package]] name = "coverage" -version = "6.3.2" +version = "6.4.4" description = "Code coverage measurement for Python" category = "dev" optional = false python-versions = ">=3.7" [package.dependencies] -tomli = {version = "*", optional = true, markers = "extra == \"toml\""} +tomli = {version = "*", optional = true, markers = "python_full_version <= \"3.11.0a6\" and extra == \"toml\""} [package.extras] toml = ["tomli"] @@ -152,7 +152,7 @@ pyflakes = ">=2.3.0,<2.4.0" [[package]] name = "idna" -version = "3.3" +version = "3.4" description = "Internationalized Domain Names in Applications (IDNA)" category = "main" optional = false @@ -160,7 +160,7 @@ python-versions = ">=3.5" [[package]] name = "imagesize" -version = "1.3.0" +version = "1.4.1" description = "Getting image size from png/jpeg/jpeg2000/gif file" category = "dev" optional = false @@ -168,7 +168,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "importlib-metadata" -version = "4.11.2" +version = "4.12.0" description = "Read metadata from Python packages" category = "dev" optional = false @@ -179,9 +179,9 @@ typing-extensions = {version = ">=3.6.4", markers = "python_version < \"3.8\""} zipp = ">=0.5" [package.extras] -docs = ["sphinx", "jaraco.packaging (>=9)", "rst.linker (>=1.9)"] +docs = ["jaraco.packaging (>=9)", "rst.linker (>=1.9)", "sphinx"] perf = ["ipython"] -testing = ["pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "pytest-cov", "pytest-enabler (>=1.0.1)", "packaging", "pyfakefs", "flufl.flake8", "pytest-perf (>=0.9.2)", "pytest-black (>=0.3.7)", "pytest-mypy (>=0.9.1)", "importlib-resources (>=1.3)"] +testing = ["flufl.flake8", "importlib-resources (>=1.3)", "packaging", "pyfakefs", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)", "pytest-perf (>=0.9.2)"] [[package]] name = "iniconfig" @@ -201,11 +201,11 @@ python-versions = "*" [[package]] name = "jinja2" -version = "3.0.3" +version = "3.1.2" description = "A very fast and expressive template engine." category = "dev" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [package.dependencies] MarkupSafe = ">=2.0" @@ -215,15 +215,15 @@ i18n = ["Babel (>=2.7)"] [[package]] name = "jmespath" -version = "0.10.0" +version = "1.0.1" description = "JSON Matching Expressions" category = "main" optional = false -python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*" +python-versions = ">=3.7" [[package]] name = "markupsafe" -version = "2.1.0" +version = "2.1.1" description = "Safely add untrusted strings to HTML/XML markup." category = "dev" optional = false @@ -246,7 +246,7 @@ optional = false python-versions = ">=3.6" [package.extras] -build = ["twine", "wheel", "blurb"] +build = ["blurb", "twine", "wheel"] docs = ["sphinx"] test = ["pytest", "pytest-cov"] @@ -302,19 +302,22 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "pygments" -version = "2.11.2" +version = "2.13.0" description = "Pygments is a syntax highlighting package written in Python." category = "dev" optional = false -python-versions = ">=3.5" +python-versions = ">=3.6" + +[package.extras] +plugins = ["importlib-metadata"] [[package]] name = "pyparsing" -version = "3.0.7" -description = "Python parsing module" +version = "3.0.9" +description = "pyparsing module - Classes and methods to define and execute parsing grammars" category = "dev" optional = false -python-versions = ">=3.6" +python-versions = ">=3.6.8" [package.extras] diagrams = ["jinja2", "railroad-diagrams"] @@ -354,7 +357,7 @@ coverage = {version = ">=5.2.1", extras = ["toml"]} pytest = ">=4.6" [package.extras] -testing = ["fields", "hunter", "process-tests", "six", "pytest-xdist", "virtualenv"] +testing = ["fields", "hunter", "process-tests", "pytest-xdist", "six", "virtualenv"] [[package]] name = "pytest-mock" @@ -368,7 +371,7 @@ python-versions = ">=3.7" pytest = ">=5.0" [package.extras] -dev = ["pre-commit", "tox", "pytest-asyncio"] +dev = ["pre-commit", "pytest-asyncio", "tox"] [[package]] name = "pytest-parallel" @@ -408,7 +411,7 @@ docutils = ">=0.14" [[package]] name = "pytz" -version = "2021.3" +version = "2022.2.1" description = "World timezone definitions, modern and historical" category = "dev" optional = false @@ -416,29 +419,29 @@ python-versions = "*" [[package]] name = "requests" -version = "2.27.1" +version = "2.28.1" description = "Python HTTP for Humans." category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*" +python-versions = ">=3.7, <4" [package.dependencies] certifi = ">=2017.4.17" -charset-normalizer = {version = ">=2.0.0,<2.1.0", markers = "python_version >= \"3\""} -idna = {version = ">=2.5,<4", markers = "python_version >= \"3\""} +charset-normalizer = ">=2,<3" +idna = ">=2.5,<4" urllib3 = ">=1.21.1,<1.27" [package.extras] -socks = ["PySocks (>=1.5.6,!=1.5.7)", "win-inet-pton"] -use_chardet_on_py3 = ["chardet (>=3.0.2,<5)"] +socks = ["PySocks (>=1.5.6,!=1.5.7)"] +use_chardet_on_py3 = ["chardet (>=3.0.2,<6)"] [[package]] name = "s3transfer" -version = "0.5.2" +version = "0.6.0" description = "An Amazon S3 Transfer Manager" category = "main" optional = false -python-versions = ">= 3.6" +python-versions = ">= 3.7" [package.dependencies] botocore = ">=1.12.36,<2.0a.0" @@ -446,6 +449,18 @@ botocore = ">=1.12.36,<2.0a.0" [package.extras] crt = ["botocore[crt] (>=1.20.29,<2.0a.0)"] +[[package]] +name = "semantic-version" +version = "2.10.0" +description = "A library implementing the 'SemVer' scheme." +category = "main" +optional = false +python-versions = ">=2.7" + +[package.extras] +dev = ["Django (>=1.11)", "check-manifest", "colorama (<=0.4.1)", "coverage", "flake8", "nose2", "readme-renderer (<25.0)", "tox", "wheel", "zest.releaser"] +doc = ["sphinx", "sphinx-rtd-theme"] + [[package]] name = "six" version = "1.16.0" @@ -490,8 +505,8 @@ sphinxcontrib-serializinghtml = "*" [package.extras] docs = ["sphinxcontrib-websupport"] -lint = ["flake8 (>=3.5.0)", "isort", "mypy (>=0.800)", "docutils-stubs"] -test = ["pytest", "pytest-cov", "html5lib", "cython", "typed-ast"] +lint = ["docutils-stubs", "flake8 (>=3.5.0)", "isort", "mypy (>=0.800)"] +test = ["cython", "html5lib", "pytest", "pytest-cov", "typed-ast"] [[package]] name = "sphinx-click" @@ -518,7 +533,7 @@ python-versions = "*" sphinx = "*" [package.extras] -dev = ["transifex-client", "sphinxcontrib-httpdomain", "bump2version"] +dev = ["bump2version", "sphinxcontrib-httpdomain", "transifex-client"] [[package]] name = "sphinxcontrib-applehelp" @@ -529,7 +544,7 @@ optional = false python-versions = ">=3.5" [package.extras] -lint = ["flake8", "mypy", "docutils-stubs"] +lint = ["docutils-stubs", "flake8", "mypy"] test = ["pytest"] [[package]] @@ -541,7 +556,7 @@ optional = false python-versions = ">=3.5" [package.extras] -lint = ["flake8", "mypy", "docutils-stubs"] +lint = ["docutils-stubs", "flake8", "mypy"] test = ["pytest"] [[package]] @@ -553,8 +568,8 @@ optional = false python-versions = ">=3.6" [package.extras] -lint = ["flake8", "mypy", "docutils-stubs"] -test = ["pytest", "html5lib"] +lint = ["docutils-stubs", "flake8", "mypy"] +test = ["html5lib", "pytest"] [[package]] name = "sphinxcontrib-jsmath" @@ -565,7 +580,7 @@ optional = false python-versions = ">=3.5" [package.extras] -test = ["pytest", "flake8", "mypy"] +test = ["flake8", "mypy", "pytest"] [[package]] name = "sphinxcontrib-qthelp" @@ -576,7 +591,7 @@ optional = false python-versions = ">=3.5" [package.extras] -lint = ["flake8", "mypy", "docutils-stubs"] +lint = ["docutils-stubs", "flake8", "mypy"] test = ["pytest"] [[package]] @@ -588,7 +603,7 @@ optional = false python-versions = ">=3.5" [package.extras] -lint = ["flake8", "mypy", "docutils-stubs"] +lint = ["docutils-stubs", "flake8", "mypy"] test = ["pytest"] [[package]] @@ -617,7 +632,7 @@ python-versions = ">=3.7" [[package]] name = "tomlkit" -version = "0.10.0" +version = "0.10.2" description = "Style preserving TOML library" category = "main" optional = false @@ -625,41 +640,41 @@ python-versions = ">=3.6,<4.0" [[package]] name = "typing-extensions" -version = "4.1.1" -description = "Backported and Experimental Type Hints for Python 3.6+" +version = "4.3.0" +description = "Backported and Experimental Type Hints for Python 3.7+" category = "dev" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [[package]] name = "urllib3" -version = "1.26.8" +version = "1.26.12" description = "HTTP library with thread-safe connection pooling, file post, and more." category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, <4" +python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*, <4" [package.extras] -brotli = ["brotlipy (>=0.6.0)"] -secure = ["pyOpenSSL (>=0.14)", "cryptography (>=1.3.4)", "idna (>=2.0.0)", "certifi", "ipaddress"] +brotli = ["brotli (>=1.0.9)", "brotlicffi (>=0.8.0)", "brotlipy (>=0.6.0)"] +secure = ["certifi", "cryptography (>=1.3.4)", "idna (>=2.0.0)", "ipaddress", "pyOpenSSL (>=0.14)", "urllib3-secure-extra"] socks = ["PySocks (>=1.5.6,!=1.5.7,<2.0)"] [[package]] name = "zipp" -version = "3.7.0" +version = "3.8.1" description = "Backport of pathlib-compatible object wrapper for zip files" category = "dev" optional = false python-versions = ">=3.7" [package.extras] -docs = ["sphinx", "jaraco.packaging (>=8.2)", "rst.linker (>=1.9)"] -testing = ["pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "pytest-cov", "pytest-enabler (>=1.0.1)", "jaraco.itertools", "func-timeout", "pytest-black (>=0.3.7)", "pytest-mypy"] +docs = ["jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx"] +testing = ["func-timeout", "jaraco.itertools", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)"] [metadata] lock-version = "1.1" python-versions = ">=3.7,<3.9" -content-hash = "1e00063d48b784dac6e544e7e02192b5f625af51077c3375201642cf910b0c5a" +content-hash = "31f971de6c2e9ae1c1bc3fe3ad386c0aa2bc0f516a9141b20bcec107d1c06f12" [metadata.files] alabaster = [ @@ -667,16 +682,15 @@ alabaster = [ {file = "alabaster-0.7.12.tar.gz", hash = "sha256:a661d72d58e6ea8a57f7a86e37d86716863ee5e92788398526d58b26a4e4dc02"}, ] atomicwrites = [ - {file = "atomicwrites-1.4.0-py2.py3-none-any.whl", hash = "sha256:6d1784dea7c0c8d4a5172b6c620f40b6e4cbfdf96d783691f2e1302a7b88e197"}, - {file = "atomicwrites-1.4.0.tar.gz", hash = "sha256:ae70396ad1a434f9c7046fd2dd196fc04b12f9e91ffb859164193be8b6168a7a"}, + {file = "atomicwrites-1.4.1.tar.gz", hash = "sha256:81b2c9071a49367a7f770170e5eec8cb66567cfbbc8c73d20ce5ca4a8d71cf11"}, ] attrs = [ - {file = "attrs-21.4.0-py2.py3-none-any.whl", hash = "sha256:2d27e3784d7a565d36ab851fe94887c5eccd6a463168875832a1be79c82828b4"}, - {file = "attrs-21.4.0.tar.gz", hash = "sha256:626ba8234211db98e869df76230a137c4c40a12d72445c45d5f5b716f076e2fd"}, + {file = "attrs-22.1.0-py2.py3-none-any.whl", hash = "sha256:86efa402f67bf2df34f51a335487cf46b1ec130d02b8d39fd248abfd30da551c"}, + {file = "attrs-22.1.0.tar.gz", hash = "sha256:29adc2665447e5191d0e7c568fde78b21f9672d344281d0c6e1ab085429b22b6"}, ] babel = [ - {file = "Babel-2.9.1-py2.py3-none-any.whl", hash = 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+semantic-version = "^2.10.0" [tool.poetry.dev-dependencies] invoke = "0.18.1" diff --git a/tibanna/_version.py b/tibanna/_version.py index ab2bed79..25247762 100755 --- a/tibanna/_version.py +++ b/tibanna/_version.py @@ -2,6 +2,7 @@ import tomlkit import os from pathlib import Path +import semantic_version def _get_project_meta(): @@ -21,3 +22,7 @@ def _get_project_meta(): # they can't parse the pyproject.toml. For all other use cases, fall back to the pyproject.toml version __version__ = os.environ.get('TIBANNA_VERSION', False) or str(pkg_meta['version']) +# AWSF image version - will default to the minor version of the deployed Tibanna +tibanna_version = semantic_version.Version(__version__) +__awsf_image_version__ = str(semantic_version.Version(major=tibanna_version.major, minor=tibanna_version.minor, patch=0)) + diff --git a/tibanna/lambdas/requirements.txt b/tibanna/lambdas/requirements.txt index 1e145179..884505a2 100755 --- a/tibanna/lambdas/requirements.txt +++ b/tibanna/lambdas/requirements.txt @@ -3,3 +3,4 @@ Benchmark-4dn>=0.5.8 boto3>=1.9.0 botocore>=1.12.1 tomlkit>=0.10.0 +semantic-version>=2.10.0 diff --git a/tibanna/vars.py b/tibanna/vars.py index ba26c775..1958aa68 100755 --- a/tibanna/vars.py +++ b/tibanna/vars.py @@ -3,7 +3,7 @@ import sys from datetime import datetime from dateutil.tz import tzutc -from ._version import __version__ +from ._version import __version__, __awsf_image_version__ from . import create_logger @@ -127,8 +127,8 @@ def PARSE_AWSEM_TIME(t_str): # Default root EBS size DEFAULT_ROOT_EBS_SIZE = 8 -# Default awsf image -DEFAULT_AWSF_IMAGE = '4dndcic/tibanna-awsf:' + __version__ +# Default awsf image - will default to the minor version of the deployed Tibanna +DEFAULT_AWSF_IMAGE = '4dndcic/tibanna-awsf:' + __awsf_image_version__ SFN_TYPE = 'unicorn' LAMBDA_TYPE = ''