Cache: create method #459
Cache: create method #459
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Actionable comments posted: 1
🧹 Outside diff range and nitpick comments (6)
tests/test_cache_executor_pysqa_flux.py (2)
Line range hint
31-34: Consider using the new factory method.Since a new
create_file_executorfactory method has been introduced, consider updating this test to use it instead of directly instantiatingFileExecutor.- with FileExecutor( - resource_dict={"cores": 2}, - backend="flux", - ) as exe: + with create_file_executor( + resource_dict={"cores": 2}, + backend="flux", + ) as exe:🧰 Tools
🪛 Ruff
7-7:
flux.jobimported but unused; consider usingimportlib.util.find_specto test for availability(F401)
Missing test coverage for create_file_executor factory method
The codebase shows that
create_file_executoris implemented inexecutorlib/cache/executor.pybut there are no direct tests for this factory method. While the underlyingFileExecutorclass is well tested across multiple test files, the factory method itself needs test coverage for its various configuration options:
- max_workers
- backend selection
- max_cores
- resource dictionary configuration
- flux-specific configurations
🔗 Analysis chain
Line range hint
31-39: Verify test coverage for the new factory method.Let's ensure the test coverage includes the new factory method.
🏁 Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Check if there are any tests for the new factory method # Test: Search for tests using create_file_executor rg -l "create_file_executor" "tests/" # Test: Search for the factory method definition to compare with test coverage ast-grep --pattern 'def create_file_executor'Length of output: 83
Script:
#!/bin/bash # Let's first check if the factory method exists in the codebase rg -l "FileExecutor" --type py # Then look for its implementation and related tests rg "FileExecutor" -A 5 --type pyLength of output: 5399
Script:
#!/bin/bash # Let's check for any factory method in the codebase rg "def create_" --type py # And also check for any function that returns FileExecutor ast-grep --pattern 'return FileExecutor'Length of output: 184
Script:
#!/bin/bash # Let's examine the create_file_executor implementation and its test coverage rg -A 10 "def create_file_executor" executorlib/cache/executor.py # Check if there are any indirect tests using this factory method rg "create_file_executor" tests/ -A 5Length of output: 511
🧰 Tools
🪛 Ruff
7-7:
flux.jobimported but unused; consider usingimportlib.util.find_specto test for availability(F401)
executorlib/cache/executor.py (3)
Line range hint
30-44: Add type hints and validation for the backend parameter.While the
pysqa_config_directoryparameter is well documented, thebackendparameter could use some improvements:
- Add type hints to clarify expected values
- Document valid backend options in the docstring
- Consider adding validation for supported backend values
Apply this diff:
def __init__( self, cache_directory: str = "cache", resource_dict: Optional[dict] = None, execute_function: callable = execute_with_pysqa, terminate_function: Optional[callable] = None, - pysqa_config_directory: Optional[str] = None, - backend: Optional[str] = None, + pysqa_config_directory: Optional[str] = None, + backend: Optional[Literal["flux", "slurm"]] = None, ): """ Initialize the FileExecutor. Args: cache_directory (str, optional): The directory to store cache files. Defaults to "cache". resource_dict (dict): A dictionary of resources required by the task. With the following keys: - cores (int): number of MPI cores to be used for each function call - cwd (str/None): current working directory where the parallel python task is executed execute_function (callable, optional): The function to execute tasks. Defaults to execute_in_subprocess. terminate_function (callable, optional): The function to terminate the tasks. pysqa_config_directory (str, optional): path to the pysqa config directory (only for pysqa based backend). - backend (str, optional): name of the backend used to spawn tasks. + backend (str, optional): name of the backend used to spawn tasks. Supported values: "flux", "slurm". """
76-89: Add comprehensive docstring for the factory method.The factory method lacks documentation describing its parameters, return value, and possible exceptions.
Add this docstring:
def create_file_executor( max_workers: int = 1, backend: str = "pysqa_flux", max_cores: int = 1, cache_directory: Optional[str] = None, resource_dict: Optional[dict] = None, flux_executor=None, flux_executor_pmi_mode: Optional[str] = None, flux_executor_nesting: bool = False, pysqa_config_directory: Optional[str] = None, hostname_localhost: Optional[bool] = None, block_allocation: bool = False, init_function: Optional[callable] = None, ): """Create a new FileExecutor instance with pysqa backend validation. Args: max_workers (int): Must be 1 for pysqa backend. backend (str): Backend name with 'pysqa_' prefix. Supported: 'pysqa_flux', 'pysqa_slurm'. max_cores (int): Must be 1 for pysqa backend. cache_directory (str, optional): Directory for cache files. Defaults to "executorlib_cache". resource_dict (dict, optional): Resource requirements dictionary. flux_executor: Flux executor instance if using flux backend. flux_executor_pmi_mode (str, optional): Not supported with pysqa backend. flux_executor_nesting (bool): Whether to enable flux executor nesting. pysqa_config_directory (str, optional): Path to pysqa configuration. hostname_localhost (bool, optional): Not supported with pysqa backend. block_allocation (bool): Not supported with pysqa backend. init_function (callable, optional): Not supported with pysqa backend. Returns: FileExecutor: Configured executor instance. Raises: ValueError: If any parameters violate pysqa backend constraints. """
92-111: Improve error messages with valid alternatives.The error messages could be more helpful by suggesting valid alternatives or explaining why the options aren't available.
Example improvement for max_workers:
- "The number of workers cannot be controlled with the pysqa based backend." + "The pysqa backend manages its own workers. Set max_workers=1 to acknowledge this constraint."executorlib/cache/shared.py (1)
69-69: Consider enhancing the docstring for better parameter correlation.While the docstring clearly explains the parameter's purpose, it would be helpful to explicitly document when
pysqa_config_directoryis required based on thebackendparameter value.Consider updating the docstring to:
- pysqa_config_directory (str, optional): path to the pysqa config directory (only for pysqa based backend). + pysqa_config_directory (str, optional): Path to the pysqa config directory. Required when backend="pysqa", ignored otherwise.
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📒 Files selected for processing (3)
- executorlib/cache/executor.py (4 hunks)
- executorlib/cache/shared.py (3 hunks)
- tests/test_cache_executor_pysqa_flux.py (1 hunks)
🔇 Additional comments (5)
tests/test_cache_executor_pysqa_flux.py (1)
8-8: LGTM! Import path updated correctly.The import statement has been updated to reflect the new module structure.
executorlib/cache/executor.py (2)
10-13: LGTM: Clean import organization.The new validation function imports are properly organized with other standalone imports.
69-71: LGTM: Consistent parameter propagation.The new parameters are correctly passed to
execute_tasks_h5with proper indentation.executorlib/cache/shared.py (2)
55-55: LGTM! Parameter name change improves clarity.The renamed parameter
pysqa_config_directorybetter describes its purpose by explicitly indicating its relationship to pysqa configuration.
123-124: Verify parameter naming consistency with execute_function.The parameter is passed as
config_directorybut received aspysqa_config_directory. This suggests that theexecute_functionmight still be using the old parameter name.Let's verify the parameter naming in the codebase:
| check_executor(executor=flux_executor) | ||
| check_nested_flux_executor(nested_flux_executor=flux_executor_nesting) | ||
| return FileExecutor( | ||
| cache_directory=cache_directory, | ||
| resource_dict=resource_dict, | ||
| pysqa_config_directory=pysqa_config_directory, | ||
| backend=backend.split("pysqa_")[-1], | ||
| ) |
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Add validation for backend name format and safer string manipulation.
The backend name transformation assumes the "pysqa_" prefix exists and could fail if an invalid backend is provided.
Apply this diff:
check_executor(executor=flux_executor)
check_nested_flux_executor(nested_flux_executor=flux_executor_nesting)
+ if not backend.startswith("pysqa_"):
+ raise ValueError(
+ f"Backend must start with 'pysqa_'. Got: {backend}. "
+ "Supported backends: pysqa_flux, pysqa_slurm"
+ )
+ actual_backend = backend[len("pysqa_"):]
+ if actual_backend not in ["flux", "slurm"]:
+ raise ValueError(
+ f"Unsupported backend: {backend}. "
+ "Supported backends: pysqa_flux, pysqa_slurm"
+ )
return FileExecutor(
cache_directory=cache_directory,
resource_dict=resource_dict,
pysqa_config_directory=pysqa_config_directory,
- backend=backend.split("pysqa_")[-1],
+ backend=actual_backend,
)📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| check_executor(executor=flux_executor) | |
| check_nested_flux_executor(nested_flux_executor=flux_executor_nesting) | |
| return FileExecutor( | |
| cache_directory=cache_directory, | |
| resource_dict=resource_dict, | |
| pysqa_config_directory=pysqa_config_directory, | |
| backend=backend.split("pysqa_")[-1], | |
| ) | |
| check_executor(executor=flux_executor) | |
| check_nested_flux_executor(nested_flux_executor=flux_executor_nesting) | |
| if not backend.startswith("pysqa_"): | |
| raise ValueError( | |
| f"Backend must start with 'pysqa_'. Got: {backend}. " | |
| "Supported backends: pysqa_flux, pysqa_slurm" | |
| ) | |
| actual_backend = backend[len("pysqa_"):] | |
| if actual_backend not in ["flux", "slurm"]: | |
| raise ValueError( | |
| f"Unsupported backend: {backend}. " | |
| "Supported backends: pysqa_flux, pysqa_slurm" | |
| ) | |
| return FileExecutor( | |
| cache_directory=cache_directory, | |
| resource_dict=resource_dict, | |
| pysqa_config_directory=pysqa_config_directory, | |
| backend=actual_backend, | |
| ) |
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Actionable comments posted: 1
🧹 Outside diff range and nitpick comments (2)
executorlib/__init__.py (2)
187-189: Consider moving import statement to module level.The import of
create_file_executoris placed inside the conditional block. While this works, it could mask import errors until runtime. Consider moving it to the module level with the other imports for better error handling and code organization.from executorlib.cache.executor import FileExecutor +from executorlib.cache.executor import create_file_executor
187-203: Document the relationship betweenplot_dependency_graphand pysqa backend.The condition
not plot_dependency_graphin the pysqa backend check needs documentation to explain why dependency graph plotting is incompatible with the pysqa backend.Add a note in the docstring explaining this limitation:
plot_dependency_graph (bool): Plot the dependencies of multiple future objects without executing them. For - debugging purposes and to get an overview of the specified dependencies. + debugging purposes and to get an overview of the specified dependencies. + Note: This feature is not compatible with pysqa backends.
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📒 Files selected for processing (1)
- executorlib/init.py (5 hunks)
🔇 Additional comments (2)
executorlib/__init__.py (2)
50-50: LGTM: Parameter addition is consistent and well-typed.The new
pysqa_config_directoryparameter is properly added to both__init__and__new__methods with consistent typing and documentation.Also applies to: 99-99, 120-120, 155-155
Line range hint
155-164: LGTM: Documentation is clear and consistent.The documentation for the new
pysqa_config_directoryparameter follows the existing style and provides clear information about its purpose and usage context.
| if "pysqa_" in backend and not plot_dependency_graph: | ||
| from executorlib.cache.executor import create_file_executor | ||
|
|
||
| return create_file_executor( | ||
| max_workers=max_workers, | ||
| backend=backend, | ||
| max_cores=max_cores, | ||
| cache_directory=cache_directory, | ||
| resource_dict=resource_dict, | ||
| flux_executor=flux_executor, | ||
| flux_executor_pmi_mode=flux_executor_pmi_mode, | ||
| flux_executor_nesting=flux_executor_nesting, | ||
| pysqa_config_directory=pysqa_config_directory, | ||
| hostname_localhost=hostname_localhost, | ||
| block_allocation=block_allocation, | ||
| init_function=init_function, | ||
| ) |
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💡 Codebase verification
Based on the gathered information, I can now provide the final response:
pysqa backend implementation is properly integrated but lacks tests
The implementation shows:
- Proper backend integration in
executorlib/cache/executor.pyandexecutorlib/cache/shared.py - Comprehensive error handling for unsupported features with clear error messages
- Clear parameter documentation and type hints
However:
- No dedicated test files found for pysqa functionality
- No usage examples in documentation
🔗 Analysis chain
Verify pysqa backend implementation and testing.
Let's verify the existence of pysqa backend implementations and related tests:
Let me gather more information to verify the implementation and testing thoroughly.
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Script:
#!/bin/bash
# Description: Verify pysqa backend implementation and testing
# Check for pysqa backend implementations
echo "Checking for pysqa backend implementations..."
rg -l "pysqa_" --type py
# Check for related tests
echo "Checking for pysqa-related tests..."
fd -e py -x grep -l "pysqa" {} \; tests/
# Check for usage examples
echo "Checking for usage examples..."
rg -l "pysqa" docs/ || true
Length of output: 760
Script:
#!/bin/bash
# Check implementation details of pysqa backend
echo "Checking pysqa backend implementation in executor.py..."
rg "pysqa_" executorlib/cache/executor.py -A 5
echo -e "\nChecking pysqa-related shared functionality..."
rg "pysqa" executorlib/cache/shared.py -A 5
echo -e "\nLooking for tests in the correct path..."
fd -e py -x grep -l "pysqa" {} \; .
echo -e "\nChecking for error handling in pysqa implementation..."
rg "raise" -A 2 executorlib/cache/executor.py
Length of output: 3355
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Actionable comments posted: 0
🧹 Outside diff range and nitpick comments (2)
executorlib/standalone/cache/queue.py (1)
38-46: Consider enhancing parameter filtering with logging and documentation.The filtering of unsupported keys is a good practice, but consider these improvements:
- Add these unsupported parameters to the function's docstring to make it clear to users
- Add debug logging when parameters are removed to help with troubleshooting
Here's a suggested implementation:
def execute_with_pysqa( command: str, resource_dict: dict, task_dependent_lst: List[int] = [], config_directory: Optional[str] = None, backend: Optional[str] = None, ) -> int: """ Execute a command by submitting it to the queuing system Args: command (list): The command to be executed. task_dependent_lst (list): A list of subprocesses that the current subprocess depends on. Defaults to []. resource_dict (dict): resource dictionary, which defines the resources used for the execution of the function. Example resource dictionary: { cwd: None, } + Note: The following parameters are not supported and will be removed: + - threads_per_core + - gpus_per_core + - openmpi_oversubscribe + - slurm_cmd_args config_directory (str, optional): path to the config directory. backend (str, optional): name of the backend used to spawn tasks. Returns: int: queuing system ID """ + import logging + logger = logging.getLogger(__name__) if resource_dict is None: resource_dict = {"cwd": "."} qa = QueueAdapter(directory=config_directory, queue_type=backend) submit_kwargs = { "command": " ".join(command), "dependency_list": [str(qid) for qid in task_dependent_lst], "working_directory": resource_dict["cwd"], } del resource_dict["cwd"] unsupported_keys = [ "threads_per_core", "gpus_per_core", "openmpi_oversubscribe", "slurm_cmd_args", ] for k in unsupported_keys: if k in resource_dict: + logger.debug(f"Removing unsupported parameter: {k}") del resource_dict[k]tests/test_cache_executor_serial.py (1)
Based on the gathered information, I can now provide the final response:
Test coverage needed for new features in FileExecutor
The codebase needs test coverage for:
- The
create_file_executorfactory method inexecutorlib/cache/executor.pywhich has no existing tests- The
pysqa_config_directoryparameter in FileExecutor constructor which is currently untestedSuggested test cases should cover:
- Basic usage of
create_file_executorwith default parameters- Setting custom
pysqa_config_directorypath- Error cases for invalid combinations (e.g.,
max_workers != 1,max_cores != 1)- Backend-specific behavior with
pysqa_config_directory🔗 Analysis chain
Line range hint
31-147: Consider adding test coverage for new features.The test suite should be extended to cover:
- The renamed parameter
pysqa_config_directoryin FileExecutor constructor- The new
create_file_executorfactory methodLet's verify the new features that need test coverage:
Would you like me to help generate test cases for these new features?
Let me gather more information about the FileExecutor class to understand its constructor parameters.
Let me check the implementation of FileExecutor to understand its constructor parameters and the create_file_executor factory method better.
🏁 Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Verify the presence of new features that need test coverage # Test 1: Check for the renamed parameter echo "Checking for pysqa_config_directory parameter..." ast-grep --pattern 'class FileExecutor: $$$ def __init__($$$, pysqa_config_directory, $$$): $$$' # Test 2: Check for the factory method echo "Checking for create_file_executor method..." ast-grep --pattern 'def create_file_executor($$$): $$$'Length of output: 3857
Script:
#!/bin/bash # Check FileExecutor class definition and constructor ast-grep --pattern 'class FileExecutor: $$$ def __init__($$$): $$$' # Check existing test files for FileExecutor fd "test.*\.py" | xargs rg "FileExecutor"Length of output: 643
Script:
#!/bin/bash # Get FileExecutor implementation rg -A 20 "class FileExecutor" executorlib/cache/executor.py # Check if there are any existing tests for create_file_executor rg "create_file_executor" tests/Length of output: 1273
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📒 Files selected for processing (5)
- executorlib/init.py (5 hunks)
- executorlib/standalone/cache/queue.py (1 hunks)
- tests/test_cache_executor_mpi.py (1 hunks)
- tests/test_cache_executor_pysqa_flux.py (2 hunks)
- tests/test_cache_executor_serial.py (1 hunks)
🚧 Files skipped from review as they are similar to previous changes (1)
- tests/test_cache_executor_pysqa_flux.py
🔇 Additional comments (8)
tests/test_cache_executor_mpi.py (1)
10-10: LGTM! Verify import consistency across the codebase.The import path update aligns with the module restructuring. The error handling remains intact.
Let's verify the consistency of FileExecutor imports across the codebase:
✅ Verification successful
Import path update is consistent across the codebase
The verification shows that the new import path
from executorlib.cache.executor import FileExecutoris consistently used in both test files (test_cache_executor_serial.pyandtest_cache_executor_mpi.py), and there are no instances of the old import pattern remaining.🏁 Scripts executed
The following scripts were executed for the analysis:
Script:
#!/bin/bash # Description: Check for any remaining old-style imports of FileExecutor # and verify the consistency of the new import path # Search for any remaining old imports echo "Checking for old import patterns:" rg "from executorlib import FileExecutor" # Verify new import pattern usage echo -e "\nVerifying new import pattern usage:" rg "from executorlib.cache.executor import FileExecutor"Length of output: 447
executorlib/standalone/cache/queue.py (1)
38-46: Verify the impact of removing these parameters.The code removes specific scheduler parameters without providing alternatives. Let's verify if these parameters are used elsewhere in the codebase or if there are alternative ways to configure these settings.
✅ Verification successful
Removing these parameters is safe as they are properly handled by the backend-specific code
The removal of these parameters (
threads_per_core,gpus_per_core,openmpi_oversubscribe,slurm_cmd_args) from the resource dictionary in the queue adapter is correct because:
These parameters are backend-specific and are properly handled in
executorlib/interactive/executor.py:
- For Flux backend:
openmpi_oversubscribeandslurm_cmd_argsare checked and removed- For Local backend: All parameters are checked and removed after validation
- For SLURM backend: Parameters are passed through to the appropriate spawner
The queue adapter is specifically removing these parameters to prevent conflicts with the job scheduler's configuration, while the actual handling of these resources is managed by the respective backend implementations.
🏁 Scripts executed
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Script:
#!/bin/bash # Description: Check for usage of removed parameters in the codebase echo "Checking for usage of removed parameters..." for param in "threads_per_core" "gpus_per_core" "openmpi_oversubscribe" "slurm_cmd_args"; do echo "Searching for: $param" rg -l "$param" --type python done echo "Checking for alternative configuration methods..." rg -l "QueueAdapter.*configure" --type pythonLength of output: 1220
Script:
#!/bin/bash # Let's try without the --type python flag since it's not recognized # First, let's check for these parameters in Python files echo "Checking for usage of removed parameters..." for param in "threads_per_core" "gpus_per_core" "openmpi_oversubscribe" "slurm_cmd_args"; do echo "Searching for: $param" fd '\.py$' -x rg -l "$param" {} \; done # Let's also check for any configuration or adapter related files echo -e "\nChecking configuration related files..." fd '\.py$' -x rg -l "QueueAdapter|queue_adapter|resource_dict" {} \;Length of output: 3302
Script:
#!/bin/bash # Let's check the actual usage of these parameters in key files echo "Checking parameter usage in key files..." # Check executorlib/__init__.py for parameter definitions echo -e "\nChecking executorlib/__init__.py:" rg -C 3 "threads_per_core|gpus_per_core|openmpi_oversubscribe|slurm_cmd_args" executorlib/__init__.py # Check test files to understand parameter usage in tests echo -e "\nChecking test files for parameter usage:" rg -C 3 "threads_per_core|gpus_per_core|openmpi_oversubscribe|slurm_cmd_args" tests/test_shared_backend.py tests/test_dependencies_executor.py # Check interactive executor implementation echo -e "\nChecking interactive executor implementation:" rg -C 3 "threads_per_core|gpus_per_core|openmpi_oversubscribe|slurm_cmd_args" executorlib/interactive/executor.py # Check if there are any alternative configuration methods echo -e "\nChecking for alternative configuration patterns:" rg -C 3 "def configure|resource_dict" executorlib/interactive/executor.py executorlib/standalone/cache/queue.pyLength of output: 20419
tests/test_cache_executor_serial.py (1)
14-15: LGTM! Import path update is consistent with module restructuring.The updated import path better reflects the module organization by explicitly showing that
FileExecutorbelongs to the cache functionality.executorlib/__init__.py (5)
42-42: LGTM: Parameter documentation is clear and consistent.The documentation for
pysqa_config_directoryclearly explains its purpose and scope.
91-91: LGTM: Parameter correctly added with proper type hints.The
pysqa_config_directoryparameter is properly defined withOptional[str]type hint andNonedefault value.
112-112: LGTM: Parameter consistently defined between__init__and__new__.The
pysqa_config_directoryparameter maintains consistency in type hints and default values.
147-147: LGTM: Parameter documentation is consistent with class-level docstring.The documentation in
__new__maintains consistency with the class-level documentation.
179-195: 🛠️ Refactor suggestionConsider adding validation and error handling for pysqa backend.
While the implementation is functionally correct, consider adding:
- Validation for the pysqa backend string format
- Error handling for missing or invalid pysqa config directory
- Unit tests for the new pysqa backend path
Let's verify the current test coverage:
Consider adding validation before the pysqa backend initialization:
+ if "pysqa_" in backend: + if not backend.startswith("pysqa_"): + raise ValueError(f"Invalid pysqa backend format: {backend}. Must start with 'pysqa_'") + if not pysqa_config_directory: + raise ValueError("pysqa_config_directory is required for pysqa backend") + if "pysqa_" in backend and not plot_dependency_graph: from executorlib.cache.executor import create_file_executor
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Actionable comments posted: 0
🧹 Outside diff range and nitpick comments (1)
tests/test_cache_executor_pysqa_flux.py (1)
33-48: Consider documenting the new parameters.Several new parameters have been added to the Executor instantiation:
- block_allocation
- pysqa_config_directory
- hostname_localhost
- init_function
- disable_dependencies
- plot_dependency_graph
Consider adding docstrings or comments explaining:
- The purpose of each new parameter
- The expected values and their impact
- Which parameters are required vs optional
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📒 Files selected for processing (2)
- executorlib/standalone/cache/queue.py (1 hunks)
- tests/test_cache_executor_pysqa_flux.py (2 hunks)
🚧 Files skipped from review as they are similar to previous changes (1)
- executorlib/standalone/cache/queue.py
🔇 Additional comments (3)
tests/test_cache_executor_pysqa_flux.py (3)
8-8: LGTM: Import statement updated correctly.The import statement has been properly updated to use the new
Executorclass, maintaining the existing error handling pattern.
33-48: LGTM: Test logic remains robust.The test logic properly verifies:
- Task submission
- Asynchronous execution
- MPI functionality with correct rank distribution
- Task completion
33-48: Verify the impact of backend change from "flux" to "pysqa_flux".The backend parameter has been changed from "flux" to "pysqa_flux". Let's verify this change doesn't break other tests.
Summary by CodeRabbit
New Features
create_file_executorfor streamlined creation ofFileExecutorinstances with validation.Enhancements
pysqa_config_directoryparameter to enhance configurability for users utilizing the pysqa backend.resource_dict, enhancing robustness during job submissions.Bug Fixes
Documentation
FileExecutorand related functions for better user understanding.