diff --git a/.github/workflows/_tox.yml b/.github/workflows/_tox.yml index 56eddd4..caa5696 100644 --- a/.github/workflows/_tox.yml +++ b/.github/workflows/_tox.yml @@ -6,7 +6,6 @@ on: description: What to run under tox required: true - jobs: run: runs-on: "ubuntu-latest" @@ -18,5 +17,12 @@ jobs: - name: Install uv uses: astral-sh/setup-uv@v7 + - name: Install Argo + run: | + curl -sLO https://github.com/argoproj/argo-workflows/releases/download/v4.0.6/argo-linux-amd64.gz + gunzip argo-linux-amd64.gz + chmod +x argo-linux-amd64 + sudo mv argo-linux-amd64 /usr/local/bin/argo + - name: Run tox run: uv run --locked tox -e ${{ inputs.tox }} diff --git a/.gitignore b/.gitignore index 0f33bf2..e40ace3 100644 --- a/.gitignore +++ b/.gitignore @@ -69,3 +69,6 @@ lockfiles/ # ruff cache .ruff_cache/ + +# environment variables file +*.env diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index a43ed57..83f3d90 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -17,6 +17,30 @@ repos: types: [python] require_serial: true + - id: create-workflow-templates + name: creates workflow templates + language: system + entry: bash scripts/runthefiles.sh + types: [python] + pass_filenames: true + require_serial: true + + - id: confirm-diamond-compatability + name: ensure yaml is diamond-compatible + language: system + entry: python scripts/checkyamlcompliance.py + types: [yaml] + pass_filenames: true + require_serial: true + + - id: lint-yaml-files + name: run argo lint on the yaml files + language: system + entry: bash scripts/lintyaml.sh + types: [yaml] + pass_filenames: true + require_serial: true + - id: ruff-format name: format with ruff language: system diff --git a/Dockerfile b/Dockerfile index e9e86ba..67f5a49 100644 --- a/Dockerfile +++ b/Dockerfile @@ -11,6 +11,11 @@ RUN gunzip "argo-linux-amd64.gz" RUN chmod +x "argo-linux-amd64" RUN mv "./argo-linux-amd64" /usr/local/bin/argo +#Install Kubectl +RUN curl -LO "https://dl.k8s.io/release/$(curl -L -s https://dl.k8s.io/release/stable.txt)/bin/linux/amd64/kubectl" +RUN chmod +x ./kubectl +RUN mv ./kubectl /usr/local/bin + # The build stage installs the context into the venv FROM developer AS build diff --git a/divisionyaml.yaml b/divisionyaml.yaml new file mode 100644 index 0000000..35cf72d --- /dev/null +++ b/divisionyaml.yaml @@ -0,0 +1,66 @@ +apiVersion: argoproj.io/v1alpha1 +kind: ClusterWorkflowTemplate +metadata: + generateName: hera-division- + annotations: + workflows.argoproj.io/description: |- + Takes a numerical input and returns the + remainder, output float, and output string to a json file + workflows.argoproj.io/title: Division via hera test + workflows.diamond.ac.uk/repository: https://github.com/DiamondLightSource/python-interface-to-workflows + labels: + workflows.diamond.ac.uk/science-group-examples: 'true' +spec: + entrypoint: divide + templates: + - name: divide + steps: + - - name: first + template: do-devision + arguments: + parameters: + - name: a + value: '2' + - name: b + value: '5' + - name: do-devision + inputs: + parameters: + - name: a + - name: b + outputs: + artifacts: + - name: json-output + path: /output-dir/output.json + script: + image: None + source: |- + import os + import sys + sys.path.append(os.getcwd()) + import json + try: a = json.loads(r'''{{inputs.parameters.a}}''') + except: a = r'''{{inputs.parameters.a}}''' + try: b = json.loads(r'''{{inputs.parameters.b}}''') + except: b = r'''{{inputs.parameters.b}}''' + + div = a / b + intdiv = a // b + remain = a % b + dictionary_of_results = {'divide': div, 'integer divisor': intdiv, 'remainder': remain} + with open('/output-dir/output.json', 'w') as otpt: + json.dump(dictionary_of_results, otpt) + command: + - python + volumeMounts: + - name: output-dir + mountPath: /output-dir/ + volumeClaimTemplates: + - metadata: + name: output-dir + spec: + accessModes: + - ReadWriteOnce + resources: + requests: + storage: 1Mi diff --git a/pyproject.toml b/pyproject.toml index 02132d0..2c2f80f 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -16,6 +16,8 @@ description = " Python alternative to creating and running argo workflows in the dependencies = [ "gql", "aiohttp", + "hera", + "requests", ] # Add project dependencies here, e.g. ["click", "numpy"] dynamic = ["version"] license.file = "LICENSE" diff --git a/scripts/checkyamlcompliance.py b/scripts/checkyamlcompliance.py new file mode 100644 index 0000000..96a51ee --- /dev/null +++ b/scripts/checkyamlcompliance.py @@ -0,0 +1,53 @@ +#!/bin/python +import os +import re + +yamlpath = "src/python_interface_to_workflows/templates/" +yamllist: list[str] = [] +for x in os.listdir(yamlpath): + if x.endswith(".yaml"): + yamllist.append(x) + +for file in yamllist: + z = 0 + with open(yamlpath + file) as s: + filelist = s.readlines() + cleanfilenames: list[str] = [] + for line in filelist: + line = line.rstrip() + cleanfilenames.append(line) + api_ver = any( + re.search(r"apiVersion:\sargoproj\.io\/v1alpha1", line) + for line in cleanfilenames + ) + # replace regex with r"kind:\sClusterWorkflowTemplate" on graphql + clst_tmpt = any(re.search(r"kind:\sWorkflow", line) for line in cleanfilenames) + title = any( + re.search(r"\s\s\s\sworkflows.argoproj.io/title:\s.+", line) + for line in cleanfilenames + ) + repo = any( + re.search(r"\s\s\s\sworkflows.diamond.ac.uk/repository:\s.+", line) + for line in cleanfilenames + ) + group = any( + re.search(r"\s\s\s\sworkflows.diamond.ac.uk/science-group-.+:\s.+", line) + for line in cleanfilenames + ) + gen_name = any(re.search(r"\s\sgenerateName:\s.+", line) for line in cleanfilenames) + normal_name = any(re.search(r"^\s\sname:\s.+", line) for line in cleanfilenames) + if api_ver and clst_tmpt and title and repo and group: + if gen_name != normal_name: + exit(0) + else: + print( + "generated_name and normal_name error, must have one of these not both" + ) + exit(1) + else: + print(f"""api_ver present?: {api_ver} + cluster template present?: {clst_tmpt} + title present?: {title} + repository present?: {repo} + group present?: {group}""") + exit(1) diff --git a/scripts/lintyaml.sh b/scripts/lintyaml.sh new file mode 100644 index 0000000..3de474e --- /dev/null +++ b/scripts/lintyaml.sh @@ -0,0 +1,9 @@ +#!/bin/bash +cd src/python_interface_to_workflows/templates +for file in * +do +argo lint "$file" --offline +SUCCESSFULLINT=$? +[ $SUCCESSFULLINT -ne 0 ] && exit 1 +done +exit 0 diff --git a/scripts/runthefiles.sh b/scripts/runthefiles.sh new file mode 100644 index 0000000..a7453b4 --- /dev/null +++ b/scripts/runthefiles.sh @@ -0,0 +1,8 @@ +#!/bin/bash +cd src/python_interface_to_workflows/workflow_definitions +for file in * +do +uv run "$file" +done +mv *.yaml ../templates/ +git add -u ../templates/ diff --git a/src/.env b/src/.env new file mode 100644 index 0000000..1974575 --- /dev/null +++ b/src/.env @@ -0,0 +1,4 @@ +"HOST" = "https://argo-workflows.staging.workflows.diamond.ac.uk/" +"IMAGE" = "python:3.10" +"TOKEN" = "Token" +"NAMESPACE" = "ks10000-3" diff --git a/src/python_interface_to_workflows/get_token.py b/src/python_interface_to_workflows/auth/get_token.py similarity index 100% rename from src/python_interface_to_workflows/get_token.py rename to src/python_interface_to_workflows/auth/get_token.py diff --git a/src/python_interface_to_workflows/submit_to_graphql.py b/src/python_interface_to_workflows/submit_to_graphql.py index 18163d8..fc37ece 100644 --- a/src/python_interface_to_workflows/submit_to_graphql.py +++ b/src/python_interface_to_workflows/submit_to_graphql.py @@ -20,10 +20,10 @@ def submit_to_graphql(): proposalNumber: 10000, number: 3 } - parameters: { - numinput: "19", - numdivisor: "10" - } + parameters: { + numinput: "19", + numdivisor: "10" + } ){ name } diff --git a/src/python_interface_to_workflows/templates/divisionyaml.yaml b/src/python_interface_to_workflows/templates/divisionyaml.yaml new file mode 100644 index 0000000..e7b0d39 --- /dev/null +++ b/src/python_interface_to_workflows/templates/divisionyaml.yaml @@ -0,0 +1,60 @@ +apiVersion: argoproj.io/v1alpha1 +kind: Workflow +metadata: + generateName: hera-division- + annotations: + workflows.argoproj.io/description: |- + Takes a numerical input and returns the + remainder, output float, and output string to a json file + workflows.argoproj.io/title: Division via hera test + workflows.diamond.ac.uk/repository: https://github.com/DiamondLightSource/python-interface-to-workflows + labels: + workflows.diamond.ac.uk/science-group-examples: 'true' +spec: + entrypoint: divide + templates: + - name: divide + steps: + - - name: first + template: do-division + arguments: + parameters: + - name: a + value: '2' + - name: b + value: '5' + - name: do-division + inputs: + parameters: + - name: a + - name: b + outputs: + artifacts: + - name: json-output + path: /output-dir/output.json + script: + image: None + source: |- + import os + import sys + sys.path.append(os.getcwd()) + import json + try: a = json.loads(r'''{{inputs.parameters.a}}''') + except: a = r'''{{inputs.parameters.a}}''' + try: b = json.loads(r'''{{inputs.parameters.b}}''') + except: b = r'''{{inputs.parameters.b}}''' + + div = a / b + intdiv = a // b + remain = a % b + dictionary_of_results = {'divide': div, 'quotient': intdiv, 'remainder': remain} + with open('/output-dir/output.json', 'w') as otpt: + json.dump(dictionary_of_results, otpt) + command: + - python + volumeMounts: + - name: output-dir + mountPath: /output-dir/ + volumes: + - name: output-dir + emptyDir: {} diff --git a/src/python_interface_to_workflows/workflow_definitions/create_division_yaml.py b/src/python_interface_to_workflows/workflow_definitions/create_division_yaml.py new file mode 100644 index 0000000..f8e9d42 --- /dev/null +++ b/src/python_interface_to_workflows/workflow_definitions/create_division_yaml.py @@ -0,0 +1,59 @@ +import json +import os + +from hera.shared import global_config +from hera.workflows import ( + Artifact, + EmptyDirVolume, + Steps, + Workflow, + script, # pyright: ignore[reportUnknownVariableType] +) +from hera.workflows import models as m + +global_config.host = os.environ.get("HOST") +global_config.image = str(os.environ.get("IMAGE")) +global_config.token = os.environ.get("TOKEN") + + +@script( + volume_mounts=[m.VolumeMount(name="output-dir", mount_path="/output-dir/")], + outputs=Artifact(name="json-output", path="/output-dir/output.json"), +) +def do_division(a: int, b: int): + div = a / b + intdiv = a // b + remain = a % b + dictionary_of_results = { + "divide": div, + "quotient": intdiv, + "remainder": remain, + } + with open("/output-dir/output.json", "w") as otpt: + json.dump(dictionary_of_results, otpt) + + +with Workflow( + generate_name="hera-division-", # when running on graphql this should be name + entrypoint="divide", + namespace=os.environ.get("NAMESPACE"), + api_version="argoproj.io/v1alpha1", + kind="Workflow", # ClusterWorkflowTemplate", when on graphql + labels={"workflows.diamond.ac.uk/science-group-examples": "true"}, + annotations={ + "workflows.argoproj.io/title": "Division via hera test", + "workflows.argoproj.io/description": """Takes a numerical input and returns the + remainder, output float, and output string to a json file""", + "workflows.diamond.ac.uk/repository": "https://github.com/DiamondLightSource/python-interface-to-workflows", + }, + volumes=EmptyDirVolume(name="output-dir", mount_path="/output-dir"), +) as w: + with Steps(name="divide"): + do_division(name="first", arguments={"a": 2, "b": 5}) + + +with open("divisionyaml.yaml", "w") as div: + div.write(w.to_yaml()) # pyright: ignore[reportUnknownMemberType] + + +# w.create() diff --git a/uv.lock b/uv.lock index 38b7daf..a700712 100644 --- a/uv.lock +++ b/uv.lock @@ -191,6 +191,15 @@ wheels = [ { url = "https://files.pythonhosted.org/packages/8c/7b/1fc1c09cc0756cf25861a3be10565915953876da48bb228fb9a672b20a42/cachetools-7.1.4-py3-none-any.whl", hash = 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