Slurm agent fn task #3150

JiangJiaWei1103 · 2025-02-21T14:46:55Z

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Summary by Bito

This PR implements multiple enhancements including Slurm function task plugin for cluster execution and WebhookTask feature for HTTP requests within workflows. The implementation includes improved SSH connection handling to resolve host key verification issues and prevent 'asyncssh.misc.HostKeyNotVerifiable' errors. Changes involve streamlined shell task execution logic, enhanced base agent framework, and improved robustness when connecting to new cluster nodes. The updates include configuration handling improvements and compatibility updates for newer versions of flytekit, flyteidl, and Python 3.12.

Unit tests added: True

Estimated effort to review (1-5, lower is better): 5

Signed-off-by: jiangjiawei1103 <[email protected]>

Signed-off-by: JiaWei Jiang <[email protected]>

Successfully submit and run the user-defined task as a normal python function on a remote Slurm cluster. 1. Inherit from PythonFunctionTask instead of PythonTask 2. Transfer the task module through sftp 3. Interact with amazon s3 bucket on both localhost and Slurm cluster Signed-off-by: JiaWei Jiang <[email protected]>

Specifying `--raw-output-data-prefix` option handles task_module download. Signed-off-by: JiaWei Jiang <[email protected]>

Signed-off-by: JiaWei Jiang <[email protected]>

Add `ssh_conf` filed to let users specify connection secret Note that reconnection is done in both `get` and `delete`. This is just a temporary workaround. Signed-off-by: JiaWei Jiang <[email protected]>

Signed-off-by: JiaWei Jiang <[email protected]>

For data scientists and MLEs developing flyte wf with Slurm agent, they don't actually need to know ssh connection details. We assume they only need to specify which Slurm cluster to use by hostname. Signed-off-by: JiaWei Jiang <[email protected]>

1. Write user-defined batch script to a tmp file 2. Transfer the batch script through sftp 3. Construct sbatch command to run on Slurm cluster Signed-off-by: JiaWei Jiang <[email protected]>

1. Remove SFTP for batch script transfer * Assume Slurm batch script is present on Slurm cluster 2. Support directly specifying a remote batch script path Signed-off-by: JiaWei Jiang <[email protected]>

Signed-off-by: pryce-turner <[email protected]>

Signed-off-by: JiaWei Jiang <[email protected]>

`SlurmTask` and `SlurmShellTask` now share the same agent. Signed-off-by: JiaWei Jiang <[email protected]>

flyte-bot · 2025-02-21T14:56:16Z

plugins/flytekit-slurm/flytekitplugins/slurm/function/agent.py

+        job_state = "running"
+        for o in job_res.stdout.split(" "):
+            if "JobState" in o:
+                job_state = o.split("=")[1].strip().lower()
+            elif "StdOut" in o:
+                stdout_path = o.split("=")[1].strip()
+                msg_res = await conn.run(f"cat {stdout_path}", check=True)
+                msg = msg_res.stdout


Consider adding error handling for stdout

Consider adding error handling for the case when stdout_path is not found in the job output. Currently, the code assumes msg will always be initialized which could lead to potential UnboundLocalError if StdOut is not found in the job output.

Code suggestion

Check the AI-generated fix before applying

Suggested change

job_state = "running"

for o in job_res.stdout.split(" "):

if "JobState" in o:

job_state = o.split("=")[1].strip().lower()

elif "StdOut" in o:

stdout_path = o.split("=")[1].strip()

msg_res = await conn.run(f"cat {stdout_path}", check=True)

msg = msg_res.stdout

job_state = "running"

msg = "No stdout available"

for o in job_res.stdout.split(" "):

if "JobState" in o:

job_state = o.split("=")[1].strip().lower()

elif "StdOut" in o:

stdout_path = o.split("=")[1].strip()

msg_res = await conn.run(f"cat {stdout_path}", check=True)

msg = msg_res.stdout

Code Review Run #2afb6d

Should Bito avoid suggestions like this for future reviews? (Manage Rules)

Yes, avoid them

flyte-bot · 2025-02-21T14:56:17Z

plugins/flytekit-slurm/flytekitplugins/slurm/function/agent.py

+        script = f"""#!/bin/bash -i
+        {entrypoint}
+        """


Consider more portable shebang line

Consider using a more robust shebang line #!/usr/bin/env bash instead of #!/bin/bash -i as it provides better portability across different systems where bash may not be in the standard location. Additionally, the -i flag for interactive mode may not be necessary for a batch script.

Code suggestion

Check the AI-generated fix before applying

Suggested change

script = f"""#!/bin/bash -i

{entrypoint}

"""

script = f"""#!/usr/bin/env bash

{entrypoint}

"""

Code Review Run #2afb6d

Should Bito avoid suggestions like this for future reviews? (Manage Rules)

Yes, avoid them

flyte-bot · 2025-02-21T14:56:18Z

plugins/flytekit-slurm/flytekitplugins/slurm/ssh_utils.py

+        private_key_path = os.path.abspath("./slurm_private_key")
+        with open(private_key_path, "w") as f:
+            f.write(default_client_key)


Async-unsafe file operations detected

Use Path from pathlib instead of os.path and avoid blocking open() in async functions. Consider using aiofiles.

Code suggestion

Check the AI-generated fix before applying

Suggested change

private_key_path = os.path.abspath("./slurm_private_key")

with open(private_key_path, "w") as f:

f.write(default_client_key)

from pathlib import Path

import aiofiles

private_key_path = Path("./slurm_private_key").resolve()

async with aiofiles.open(private_key_path, "w") as f:

await f.write(default_client_key)

Code Review Run #2afb6d

Should Bito avoid suggestions like this for future reviews? (Manage Rules)

Yes, avoid them

flyte-bot · 2025-02-21T14:56:19Z

plugins/flytekit-slurm/setup.py

+
+microlib_name = f"flytekitplugins-{PLUGIN_NAME}"
+
+plugin_requires = ["flytekit>1.13.8", "flyteidl>=1.11.0b1", "asyncssh"]


Consider adding version constraints for asyncssh

Consider adding version constraints for asyncssh dependency to ensure compatibility and prevent potential breaking changes. For example: asyncssh>=2.0.0,<3.0.0

Code suggestion

Check the AI-generated fix before applying

Suggested change

plugin_requires = ["flytekit>1.13.8", "flyteidl>=1.11.0b1", "asyncssh"]

plugin_requires = ["flytekit>1.13.8", "flyteidl>=1.11.0b1", "asyncssh>=2.0.0,<3.0.0"]

Code Review Run #2afb6d

Should Bito avoid suggestions like this for future reviews? (Manage Rules)

Yes, avoid them

Signed-off-by: JiangJiaWei1103 <[email protected]>

Future-Outlier

function_0.py

function_1.py

function_2.py

Signed-off-by: JiangJiaWei1103 <[email protected]>

Signed-off-by: Future-Outlier <[email protected]>

flyte-bot · 2025-02-21T16:00:58Z

Code Review Agent Run #0c867b

Actionable Suggestions - 3

plugins/flytekit-slurm/flytekitplugins/slurm/function/agent.py - 2
- Consider more specific ssh_config type hints · Line 118-118
- Consider adding descriptive type hints · Line 149-149
flytekit/extras/tasks/shell.py - 1
- Incorrect execution lifecycle method call · Line 370-370

Review Details

Files reviewed - 6 · Commit Range: 31fc564..acfaa76
- flytekit/extend/backend/base_agent.py
- flytekit/extras/tasks/shell.py
- plugins/flytekit-slurm/flytekitplugins/slurm/function/agent.py
- plugins/flytekit-slurm/flytekitplugins/slurm/function/task.py
- plugins/flytekit-slurm/flytekitplugins/slurm/ssh_utils.py
- plugins/flytekit-slurm/setup.py
Files skipped - 1
- .github/workflows/pythonbuild.yml - Reason: Filter setting
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AI Code Review powered by

flyte-bot · 2025-02-21T16:09:11Z

plugins/flytekit-slurm/flytekitplugins/slurm/function/agent.py

+        """Get an existing SSH connection or create a new one if needed.
+
+        Args:
+            ssh_config (Dict[str, Union[str, List[str], Tuple[str, ...]]]): SSH configuration dictionary.


Consider more specific ssh_config type hints

Consider adding more specific type hints for the ssh_config dictionary keys. The current type hint Dict[str, Union[str, List[str], Tuple[str, ...]]] could be more precise by specifying the expected keys like host and username that are used in the code.

Code suggestion

Check the AI-generated fix before applying

-from typing import Dict, List, Optional, Tuple, Union +from typing import Dict, List, Optional, Tuple, Union, TypedDict + +class SshConfig(TypedDict, total=False): + host: str + username: Optional[str] + known_hosts: Optional[List[str]] + client_keys: Optional[List[str]] @@ -112,2 +118,2 @@ - self, ssh_config: Dict[str, Union[str, List[str], Tuple[str, ...]]] + self, ssh_config: SshConfig

Code Review Run #0c867b

Should Bito avoid suggestions like this for future reviews? (Manage Rules)

Yes, avoid them

flyte-bot · 2025-02-21T16:09:12Z

plugins/flytekit-slurm/flytekitplugins/slurm/function/agent.py

+    entrypoint: str,
+    script: Optional[str] = None,
+    batch_script_path: str = "/tmp/task.slurm",
+) -> Tuple[str, str]:


Consider adding descriptive type hints

Consider adding type hints for the returned tuple elements in the function signature to improve code clarity and type safety. The return type annotation could be more specific like Tuple[str, str] with descriptive aliases.

Code suggestion

Check the AI-generated fix before applying

Suggested change

) -> Tuple[str, str]:

SbatchCommand = str

ScriptContent = str

) -> Tuple[SbatchCommand, ScriptContent]:

Code Review Run #0c867b

Should Bito avoid suggestions like this for future reviews? (Manage Rules)

Yes, avoid them

flyte-bot · 2025-02-21T16:09:14Z

flytekit/extras/tasks/shell.py

@@ -367,7 +367,7 @@
        return None

    def post_execute(self, user_params: ExecutionParameters, rval: typing.Any) -> typing.Any:
-        return self._config_task_instance.post_execute(user_params, rval)
+        return self._config_task_instance.pre_execute(user_params)


Incorrect execution lifecycle method call

The post_execute method appears to be incorrectly calling pre_execute instead of post_execute on the config task instance. This could lead to incorrect execution flow since pre and post execute serve different purposes.

Code suggestion

Check the AI-generated fix before applying

Suggested change

return self._config_task_instance.pre_execute(user_params)

return self._config_task_instance.post_execute(user_params, rval)

Code Review Run #0c867b

Should Bito avoid suggestions like this for future reviews? (Manage Rules)

Yes, avoid them

Signed-off-by: JiangJiaWei1103 <[email protected]>

flyte-bot · 2025-02-22T02:00:57Z

Code Review Agent Run Status

Limitations and other issues: ❌ Failure - The AI Code Review Agent skipped reviewing this change because it is configured to exclude certain pull requests based on the source/target branch or the pull request status. You can change the settings here, or contact the agent instance creator at [email protected].

Signed-off-by: Future-Outlier <[email protected]>

flyte-bot · 2025-02-22T03:20:59Z

Code Review Agent Run #57d709

Actionable Suggestions - 0

Additional Suggestions - 10

flytekit/remote/remote.py - 1
- Consider adding null checks for chained access · Line 2620-2620
flytekit/extras/webhook/task.py - 1
- Consider using set for method validation · Line 109-110
plugins/flytekit-openai/flytekitplugins/openai/batch/agent.py - 1
- Consider direct LiteralMap creation optimization · Line 108-108
flytekit/remote/entities.py - 1
- Consider removing redundant flyte_node assignment · Line 359-359
plugins/flytekit-ray/flytekitplugins/ray/task.py - 1
- Consider extracting head pod template logic · Line 107-122
tests/flytekit/unit/extras/webhook/test_end_to_end.py - 1
- Use standard HTTP status constants · Line 51-51
flytekit/clis/sdk_in_container/serve.py - 1
- Consider using sys.path.insert for precedence · Line 74-75
tests/flytekit/unit/core/test_references.py - 2
- Consider adding more test scenarios · Line 190-198
- Missing mock call verification in test · Line 190-198
plugins/flytekit-aws-sagemaker/setup.py - 1
- Consider less strict version constraint · Line 8-8

Review Details

Files reviewed - 32 · Commit Range: acfaa76..f0f7930
- dev-requirements.in
- flytekit/clis/sdk_in_container/serve.py
- flytekit/core/reference_entity.py
- flytekit/core/type_engine.py
- flytekit/extend/backend/base_agent.py
- flytekit/extras/tasks/shell.py
- flytekit/extras/webhook/__init__.py
- flytekit/extras/webhook/agent.py
- flytekit/extras/webhook/constants.py
- flytekit/extras/webhook/task.py
- flytekit/remote/entities.py
- flytekit/remote/remote.py
- flytekit/utils/dict_formatter.py
- plugins/flytekit-aws-sagemaker/flytekitplugins/awssagemaker_inference/boto3_agent.py
- plugins/flytekit-aws-sagemaker/flytekitplugins/awssagemaker_inference/boto3_mixin.py
- plugins/flytekit-aws-sagemaker/setup.py
- plugins/flytekit-aws-sagemaker/tests/test_boto3_agent.py
- plugins/flytekit-aws-sagemaker/tests/test_boto3_mixin.py
- plugins/flytekit-greatexpectations/tests/test_schema.py
- plugins/flytekit-openai/flytekitplugins/openai/batch/agent.py
- plugins/flytekit-openai/tests/openai_batch/test_agent.py
- plugins/flytekit-ray/flytekitplugins/ray/task.py
- plugins/flytekit-ray/tests/test_ray.py
- plugins/flytekit-slurm/flytekitplugins/slurm/function/agent.py
- plugins/flytekit-slurm/tests/test_slurm_fn_task.py
- tests/flytekit/integration/remote/test_remote.py
- tests/flytekit/integration/remote/workflows/basic/deep_child_workflow.py
- tests/flytekit/integration/remote/workflows/basic/dynamic_array_map.py
- tests/flytekit/unit/core/test_references.py
- tests/flytekit/unit/extras/webhook/test_agent.py
- tests/flytekit/unit/extras/webhook/test_end_to_end.py
- tests/flytekit/unit/extras/webhook/test_task.py
Files skipped - 3
- .github/workflows/build_image.yml - Reason: Filter setting
- .github/workflows/pythonbuild.yml - Reason: Filter setting
- .github/workflows/pythonpublish.yml - Reason: Filter setting
Tools
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- Detect-secrets (Secret Scanner) - ✔︎ Successful
- MyPy (Static Code Analysis) - ✔︎ Successful
- Astral Ruff (Static Code Analysis) - ✔︎ Successful

AI Code Review powered by

Signed-off-by: Future-Outlier <[email protected]>

flyte-bot · 2025-02-22T04:40:58Z

Code Review Agent Run #179ed1

Actionable Suggestions - 0

Review Details

Files reviewed - 1 · Commit Range: f0f7930..d0d59d3
- plugins/flytekit-slurm/flytekitplugins/slurm/ssh_utils.py
Files skipped - 0
Tools
- Whispers (Secret Scanner) - ✔︎ Successful
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JiangJiaWei1103 and others added 30 commits December 14, 2024 19:18

Add slurm plugin blank components

421d1b8

Signed-off-by: jiangjiawei1103 <[email protected]>

feat: Add naive slurm agent create and get with rest api

1d1f806

Signed-off-by: jiangjiawei1103 <[email protected]>

Use asyncssh instead of REST API

5d97126

Signed-off-by: jiangjiawei1103 <[email protected]>

Test ssh communication and run sbatch

2e7f0f2

Signed-off-by: JiaWei Jiang <[email protected]>

Add delete method and support slurm job state

9644b99

Signed-off-by: JiaWei Jiang <[email protected]>

refactor: Remove redundant task_module transfer

6db24dc

Specifying `--raw-output-data-prefix` option handles task_module download. Signed-off-by: JiaWei Jiang <[email protected]>

refactor: Remove redundant env var

122c7f1

Signed-off-by: JiaWei Jiang <[email protected]>

docs: Add env setup guide for local test

e9760a7

Signed-off-by: JiaWei Jiang <[email protected]>

docs: Add links and figures

e68fda9

Signed-off-by: JiaWei Jiang <[email protected]>

docs: Fix commit sha

470637c

Signed-off-by: JiaWei Jiang <[email protected]>

docs: Fix commit sha for demo guide

1579ab4

Signed-off-by: JiaWei Jiang <[email protected]>

docs: Fix links

0e538f0

Signed-off-by: JiaWei Jiang <[email protected]>

feat: Support SSH config in task config

8229418

Add `ssh_conf` filed to let users specify connection secret Note that reconnection is done in both `get` and `delete`. This is just a temporary workaround. Signed-off-by: JiaWei Jiang <[email protected]>

docs: Include ssh config in demo example

9e6d8a6

Signed-off-by: JiaWei Jiang <[email protected]>

fix: Retain user-specified file format info

cdb56c0

Signed-off-by: JiaWei Jiang <[email protected]>

fix: Set sdt format based on user-specified file_format

36ab6e9

Signed-off-by: JiaWei Jiang <[email protected]>

Merge branch 'master' into fix-sd-empty-str-file-format

58751fb

Remove redundant modification

4af1f00

Signed-off-by: JiaWei Jiang <[email protected]>

test: Test file_format attribute alignment in dc.sd

46b7b62

Signed-off-by: JiaWei Jiang <[email protected]>

feat: Support Slurm agent with ShellTask

3a7eb6d

1. Write user-defined batch script to a tmp file 2. Transfer the batch script through sftp 3. Construct sbatch command to run on Slurm cluster Signed-off-by: JiaWei Jiang <[email protected]>

feat: Simplify Slurm job submission logic

a815fd9

1. Remove SFTP for batch script transfer * Assume Slurm batch script is present on Slurm cluster 2. Support directly specifying a remote batch script path Signed-off-by: JiaWei Jiang <[email protected]>

Added script args to agent and task

a3ea014

Signed-off-by: pryce-turner <[email protected]>

Add asyncssh to dependencies

a109bd8

Signed-off-by: JiaWei Jiang <[email protected]>

docs: Update setup and demo for a basic use case

e5da665

Signed-off-by: JiaWei Jiang <[email protected]>

docs: Update basic arch figure path

0a3d9f1

Signed-off-by: JiaWei Jiang <[email protected]>

docs: Fix typo and hyperlink

1b0f6df

Signed-off-by: JiaWei Jiang <[email protected]>

fix: A tmp workaround to test agent locally without container_image

26cc201

Signed-off-by: JiaWei Jiang <[email protected]>

feat: Support user-defined batch script content with SlurmShellTask

16d953e

`SlurmTask` and `SlurmShellTask` now share the same agent. Signed-off-by: JiaWei Jiang <[email protected]>

flyte-bot reviewed Feb 21, 2025

View reviewed changes

Revert ShellTask behavior

80f3693

Signed-off-by: JiangJiaWei1103 <[email protected]>

Future-Outlier reviewed Feb 21, 2025

View reviewed changes

JiangJiaWei1103 and others added 4 commits February 21, 2025 23:21

Remove fix for SlurmShellTask

96756df

Signed-off-by: JiangJiaWei1103 <[email protected]>

Remove blank line

074cf91

Signed-off-by: JiangJiaWei1103 <[email protected]>

fix doc string and remove logs

2d0e0d7

Signed-off-by: Future-Outlier <[email protected]>

build plugins

acfaa76

Signed-off-by: Future-Outlier <[email protected]>

flyte-bot reviewed Feb 21, 2025

View reviewed changes

merge

6227801

Signed-off-by: JiangJiaWei1103 <[email protected]>

JiangJiaWei1103 force-pushed the slurm-agent-fn-task branch from 6227801 to 46b7b62 Compare February 22, 2025 00:56

Future-Outlier added 6 commits February 22, 2025 10:19

Merge branch 'master' into slurm-agent-fn-task

860b703

merge master

45aae83

Signed-off-by: Future-Outlier <[email protected]>

fix-sage-maker-test

285a9e1

Signed-off-by: Future-Outlier <[email protected]>

add test_slurm_fn_task

6b70901

Signed-off-by: Future-Outlier <[email protected]>

fix

cf8eafa

Signed-off-by: Future-Outlier <[email protected]>

update flytebot

f0f7930

Signed-off-by: Future-Outlier <[email protected]>

add know host = None

d0d59d3

Signed-off-by: Future-Outlier <[email protected]>

Future-Outlier approved these changes Feb 22, 2025

View reviewed changes

Future-Outlier merged commit acc09a5 into flyteorg:master Feb 22, 2025
114 checks passed

Future-Outlier mentioned this pull request Feb 22, 2025

Nominate @jiangjiawei1103 as Committer flyteorg/community#37

Closed

JiangJiaWei1103 mentioned this pull request Feb 22, 2025

[WIP] [Docs] Add the Slurm agent fn task example usage flyteorg/flytesnacks#1781

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Slurm agent fn task #3150

Slurm agent fn task #3150

JiangJiaWei1103 commented Feb 21, 2025 •

edited by flyte-bot

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Code Review Agent Run #179ed1

-        private_key_path = os.path.abspath("./slurm_private_key")
-        with open(private_key_path, "w") as f:
-            f.write(default_client_key)
+        from pathlib import Path
+        import aiofiles
+        private_key_path = Path("./slurm_private_key").resolve()
+        async with aiofiles.open(private_key_path, "w") as f:
+            await f.write(default_client_key)


		microlib_name = f"flytekitplugins-{PLUGIN_NAME}"

		plugin_requires = ["flytekit>1.13.8", "flyteidl>=1.11.0b1", "asyncssh"]

-) -> Tuple[str, str]:
+SbatchCommand = str
+ScriptContent = str
+) -> Tuple[SbatchCommand, ScriptContent]:

	return self._config_task_instance.pre_execute(user_params)
	return self._config_task_instance.post_execute(user_params, rval)

Slurm agent fn task #3150

Slurm agent fn task #3150

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JiangJiaWei1103 commented Feb 21, 2025 • edited by flyte-bot Loading

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