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Next #24

Merged
merged 7 commits into from
Jun 6, 2024
Merged

Next #24

merged 7 commits into from
Jun 6, 2024

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PhilipDeegan
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@PhilipDeegan PhilipDeegan commented Jun 5, 2024

Summary by CodeRabbit

  • New Features

    • Introduced functionality for capturing and monitoring process statistics, including CPU load, memory usage, and file descriptors.
    • Added support for managing runtime statistics in a parallel computing environment using MPI.
  • Refactor

    • Restructured code to use a module stats_man from the phlop.app package.
  • Bug Fixes

    • Updated filtering logic in test_cases.py to correctly use cli_args.regex.
    • Minor condition check adjustment in PythonUnitTestCaseExtractor class.
  • Chores

    • Adjusted sleep durations in timing tests to improve efficiency.
    • Reordered import statements for better code organization.

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coderabbitai bot commented Jun 5, 2024

Warning

Review failed

The pull request is closed.

Walkthrough

The recent updates encompass enhancements and refinements across various components of the codebase. Key changes include the addition of new functionality for capturing and monitoring process statistics, adjustments to timing functionalities, and updates to command-line modules. The .gitignore file has been updated to exclude specific files and directories, and several files have undergone refactoring to improve performance and maintainability.

Changes

Files/Paths Change Summary
.gitignore Added .mkn, bin, and scope_timer.txt to the ignore list.
inc/phlop/timing/scope_timer.hpp Removed unnecessary includes, added _force_strings and _headers variables, and updated methods.
phlop/app/stats_man.py Introduced functionality for capturing and monitoring process statistics with various helper functions.
phlop/run/__main__.py Added phlop.run.mpirun_stats_man to the list of available modules.
phlop/run/mpirun_stats_man.py Added functionality for managing runtime statistics in an MPI environment.
phlop/run/stats_man.py Refactored to use stats_man module from phlop.app package and updated function calls accordingly.
phlop/run/test_cases.py Updated a lambda function to use cli_args.regex for filtering logic.
phlop/testing/test_cases.py Adjusted condition check within PythonUnitTestCaseExtractor class.
phlop/timing/scope_timer.py Reordered import statements for numpy and dataclasses.
tests/timing/test_scope_timer.cpp Adjusted sleep durations in timing test functions from 100ms to 10ms.
tests/timing/test_scope_timer.py Reordered import statements and added an import for phlop.timing.scope_timer.

Sequence Diagram(s) (Beta)

sequenceDiagram
    participant User
    participant CLI
    participant StatsManager
    participant YAMLFile

    User->>CLI: Run stats_man.py
    CLI->>StatsManager: Initialize RuntimeStatsManager
    StatsManager->>StatsManager: Capture process statistics
    StatsManager->>YAMLFile: Append statistics to YAML
    YAMLFile-->>StatsManager: Acknowledge write
    StatsManager-->>CLI: Return status
    CLI-->>User: Display summary
Loading

Poem

In the code where bytes align,
Stats and timers intertwine,
With YAML files and processes grand,
Refactored by a careful hand.
Sleepy functions now awake,
In milliseconds, changes make.
A rabbit's touch on every line,
The code is crisp, the future fine.


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Actionable comments posted: 1

Outside diff range and nitpick comments (2)
phlop/run/test_cases.py (2)

Line range hint 110-110: Replace lambda expressions with named functions to comply with Python best practices.

- op = lambda x: cli_args.regex in x
+ def op(x):
+     return cli_args.regex in x

Also applies to: 114-114

Tools
Ruff

113-113: Local variable is_valid is assigned to but never used (F841)


114-114: Do not assign a lambda expression, use a def (E731)


Line range hint 167-167: Avoid using bare except and handle specific exceptions. Also, ensure that local variables like e are used if declared.

- except:
-     e = sys.exc_info()[0]
-     print(f"Error: Unknown Error {e}")
+ except Exception as e:
+     print(f"Error: {str(e)}")

Also applies to: 172-172

Tools
Ruff

113-113: Local variable is_valid is assigned to but never used (F841)


114-114: Do not assign a lambda expression, use a def (E731)

Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

Commits

Files that changed from the base of the PR and between 6c25d9c and aaf7f0e.

Files selected for processing (4)
  • .gitignore (1 hunks)
  • inc/phlop/timing/scope_timer.hpp (5 hunks)
  • phlop/run/test_cases.py (1 hunks)
  • tests/timing/test_scope_timer.cpp (3 hunks)
Files skipped from review due to trivial changes (1)
  • .gitignore
Additional context used
Ruff
phlop/run/test_cases.py

110-110: Do not assign a lambda expression, use a def (E731)


113-113: Local variable is_valid is assigned to but never used (F841)


114-114: Do not assign a lambda expression, use a def (E731)


167-167: Local variable e is assigned to but never used (F841)


172-172: Do not use bare except (E722)

Additional comments not posted (8)
tests/timing/test_scope_timer.cpp (4)

10-10: Reduced sleep duration from 100ms to 10ms aligns with the PR's objective to optimize test execution time.


17-17: Reduced sleep duration from 100ms to 10ms aligns with the PR's objective to optimize test execution time.


27-27: The sleep duration here remains at 100ms, which seems inconsistent with the PR's objective to reduce sleep durations. Please verify if this is intentional.


37-37: Reduced sleep duration from 100ms to 10ms aligns with the PR's objective to optimize test execution time.

phlop/run/test_cases.py (1)

114-114: Updated lambda function to use cli_args.regex for filtering, aligning with the PR's objective to enhance test case filtering.

Tools
Ruff

114-114: Do not assign a lambda expression, use a def (E731)

inc/phlop/timing/scope_timer.hpp (3)

66-70: Added method force_strings to toggle string output in timer files, enhancing flexibility in output formats.


72-78: Added method headers to dynamically manage headers in timer files, improving configurability.


236-257: Updated write method to handle _force_strings and _headers, ensuring output format flexibility based on new settings.

@@ -111,7 +111,7 @@ def filter_out_regex_fails(cli_args, test_batches):
except re.error:
print("regex invalid, resorting to 'str in str' approach")
is_valid = False
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The variable is_valid is declared but never used, consider removing it if it's not needed.

- is_valid = False
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.

Suggested change
is_valid = False
Tools
Ruff

113-113: Local variable is_valid is assigned to but never used (F841)

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Actionable comments posted: 7

Outside diff range and nitpick comments (2)
phlop/run/stats_man.py (1)

Line range hint 29-29: Avoid using bare except statements as they can obscure real errors.

- except:
+ except Exception as e:
Tools
Ruff

7-7: numpy imported but unused (F401)


8-8: psutil imported but unused (F401)


9-9: yaml imported but unused (F401)


11-11: phlop.dict.ValDict imported but unused (F401)


12-12: phlop.proc.run_raw imported but unused (F401)


25-25: Undefined name print_summary (F821)

phlop/run/test_cases.py (1)

Line range hint 106-110: Replace lambda expressions with function definitions for better readability and debugging.

- op = lambda x: pattern.search(x)
- op = lambda x: cli_args.regex in x
+ def op(x):
+     return pattern.search(x) if is_valid else cli_args.regex in x
Tools
Ruff

109-109: Local variable is_valid is assigned to but never used (F841)


110-110: Do not assign a lambda expression, use a def (E731)

Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

Commits

Files that changed from the base of the PR and between aaf7f0e and 70cb18b.

Files selected for processing (7)
  • phlop/app/stats_man.py (1 hunks)
  • phlop/run/main.py (1 hunks)
  • phlop/run/mpirun_stats_man.py (1 hunks)
  • phlop/run/stats_man.py (1 hunks)
  • phlop/run/test_cases.py (2 hunks)
  • phlop/timing/scope_timer.py (1 hunks)
  • tests/timing/test_scope_timer.py (1 hunks)
Files skipped from review due to trivial changes (1)
  • tests/timing/test_scope_timer.py
Additional context used
Ruff
phlop/run/stats_man.py

7-7: numpy imported but unused (F401)


8-8: psutil imported but unused (F401)


9-9: yaml imported but unused (F401)


11-11: phlop.dict.ValDict imported but unused (F401)


12-12: phlop.proc.run_raw imported but unused (F401)


25-25: Undefined name print_summary (F821)


29-29: Do not use bare except (E722)

phlop/run/mpirun_stats_man.py

8-8: numpy imported but unused (F401)


9-9: psutil imported but unused (F401)


10-10: yaml imported but unused (F401)


12-12: phlop.dict.ValDict imported but unused (F401)


13-13: phlop.proc.run_raw imported but unused (F401)


45-45: Do not use bare except (E722)

phlop/timing/scope_timer.py

7-7: numpy imported but unused (F401)

phlop/run/test_cases.py

106-106: Do not assign a lambda expression, use a def (E731)


109-109: Local variable is_valid is assigned to but never used (F841)


110-110: Do not assign a lambda expression, use a def (E731)


163-163: Local variable e is assigned to but never used (F841)


168-168: Do not use bare except (E722)

phlop/app/stats_man.py

121-121: Local variable stats is assigned to but never used (F841)


130-130: f-string without any placeholders (F541)

Additional comments not posted (2)
phlop/run/__main__.py (1)

6-7: The update to include phlop.run.mpirun_stats_man in the available modules list is consistent with the PR's objectives to enhance CLI functionality.

phlop/run/test_cases.py (1)

109-109: The variable is_valid is declared but never used. Consider removing it if it's not needed.

Tools
Ruff

109-109: Local variable is_valid is assigned to but never used (F841)

phlop/run/stats_man.py Outdated Show resolved Hide resolved
phlop/timing/scope_timer.py Outdated Show resolved Hide resolved
yaml.dump(headers, f, default_flow_style=False)
yaml.dump(cli, f, default_flow_style=False)
f.write(f"start: {timestamp_now()} \n")
f.write(f"snapshots:\n")
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Correct the f-string to include dynamic content or convert it to a regular string if dynamic content is not needed.

- f.write(f"snapshots:\n")
+ f.write("snapshots:\n")
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.

Suggested change
f.write(f"snapshots:\n")
f.write("snapshots:\n")
Tools
Ruff

130-130: f-string without any placeholders (F541)

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Actionable comments posted: 3

Outside diff range and nitpick comments (3)
phlop/run/stats_man.py (1)

Line range hint 29-29: Avoid using bare except statements as they can obscure real errors.

- except:
+ except Exception as e:
Tools
Ruff

7-7: numpy imported but unused (F401)


8-8: psutil imported but unused (F401)


9-9: yaml imported but unused (F401)


11-11: phlop.dict.ValDict imported but unused (F401)


12-12: phlop.proc.run_raw imported but unused (F401)

phlop/run/test_cases.py (2)

Line range hint 106-110: Replace lambda expressions with function definitions for better readability and maintainability.

- op = lambda x: pattern.search(x)
- op = lambda x: cli_args.regex in x
+ def op(x):
+     return pattern.search(x)
+ def op(x):
+     return cli_args.regex in x
Tools
Ruff

109-109: Local variable is_valid is assigned to but never used (F841)


110-110: Do not assign a lambda expression, use a def (E731)


Line range hint 168-168: Avoid using bare except statements as they can obscure real errors.

- except:
+ except Exception as e:
Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

Commits

Files that changed from the base of the PR and between 70cb18b and 5b4879f.

Files selected for processing (7)
  • phlop/app/stats_man.py (1 hunks)
  • phlop/run/main.py (1 hunks)
  • phlop/run/mpirun_stats_man.py (1 hunks)
  • phlop/run/stats_man.py (1 hunks)
  • phlop/run/test_cases.py (2 hunks)
  • phlop/timing/scope_timer.py (1 hunks)
  • tests/timing/test_scope_timer.py (1 hunks)
Files skipped from review as they are similar to previous changes (3)
  • phlop/run/main.py
  • phlop/timing/scope_timer.py
  • tests/timing/test_scope_timer.py
Additional context used
Ruff
phlop/run/stats_man.py

7-7: numpy imported but unused (F401)


8-8: psutil imported but unused (F401)


9-9: yaml imported but unused (F401)


11-11: phlop.dict.ValDict imported but unused (F401)


12-12: phlop.proc.run_raw imported but unused (F401)


29-29: Do not use bare except (E722)

phlop/run/mpirun_stats_man.py

8-8: numpy imported but unused (F401)


9-9: psutil imported but unused (F401)


10-10: yaml imported but unused (F401)


12-12: phlop.dict.ValDict imported but unused (F401)


13-13: phlop.proc.run_raw imported but unused (F401)


45-45: Do not use bare except (E722)

phlop/run/test_cases.py

106-106: Do not assign a lambda expression, use a def (E731)


109-109: Local variable is_valid is assigned to but never used (F841)


110-110: Do not assign a lambda expression, use a def (E731)


163-163: Local variable e is assigned to but never used (F841)


168-168: Do not use bare except (E722)

phlop/app/stats_man.py

121-121: Local variable stats is assigned to but never used (F841)


130-130: f-string without any placeholders (F541)

Additional comments not posted (2)
phlop/run/mpirun_stats_man.py (1)

45-45: Avoid using bare except statements as they can obscure real errors.

- except:
+ except Exception as e:

Likely invalid or redundant comment.

Tools
Ruff

45-45: Do not use bare except (E722)

phlop/app/stats_man.py (1)

130-130: Correct the f-string to a regular string as no dynamic content is included.

- f.write(f"snapshots:\n")
+ f.write("snapshots:\n")

Likely invalid or redundant comment.

Tools
Ruff

130-130: f-string without any placeholders (F541)

phlop/run/stats_man.py Outdated Show resolved Hide resolved
phlop/app/stats_man.py Outdated Show resolved Hide resolved
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Actionable comments posted: 6

Outside diff range and nitpick comments (5)
phlop/run/stats_man.py (1)

Line range hint 29-29: Replace bare except with a more specific exception handling.

- except:
+ except Exception as e:
Tools
Ruff

7-7: numpy imported but unused (F401)


8-8: psutil imported but unused (F401)


9-9: yaml imported but unused (F401)


11-11: phlop.dict.ValDict imported but unused (F401)


12-12: phlop.proc.run_raw imported but unused (F401)

phlop/run/test_cases.py (2)

Line range hint 106-110: Replace lambda expressions with function definitions for clarity.

- op = lambda x: pattern.search(x)
- op = lambda x: cli_args.regex in x
+ def op(x):
+     return pattern.search(x)
+ def op(x):
+     return cli_args.regex in x
Tools
Ruff

109-109: Local variable is_valid is assigned to but never used (F841)


110-110: Do not assign a lambda expression, use a def (E731)


Line range hint 168-168: Replace bare except with a more specific exception handling.

- except:
+ except Exception as e:
phlop/testing/test_cases.py (1)

Line range hint 16-16: Remove unused import to clean up the codebase.

- from phlop.proc.run imported but unused
phlop/app/stats_man.py (1)

137-202: The RuntimeStatsManager class is well-structured. Ensure that all methods are properly documented, especially public methods.

Consider adding detailed docstrings to improve maintainability and understandability.

Review details

Configuration used: CodeRabbit UI
Review profile: CHILL

Commits

Files that changed from the base of the PR and between 5b4879f and 6d3a045.

Files selected for processing (8)
  • phlop/app/stats_man.py (1 hunks)
  • phlop/run/main.py (1 hunks)
  • phlop/run/mpirun_stats_man.py (1 hunks)
  • phlop/run/stats_man.py (1 hunks)
  • phlop/run/test_cases.py (2 hunks)
  • phlop/testing/test_cases.py (1 hunks)
  • phlop/timing/scope_timer.py (1 hunks)
  • tests/timing/test_scope_timer.py (1 hunks)
Files skipped from review as they are similar to previous changes (3)
  • phlop/run/main.py
  • phlop/timing/scope_timer.py
  • tests/timing/test_scope_timer.py
Additional context used
Ruff
phlop/run/stats_man.py

7-7: numpy imported but unused (F401)


8-8: psutil imported but unused (F401)


9-9: yaml imported but unused (F401)


11-11: phlop.dict.ValDict imported but unused (F401)


12-12: phlop.proc.run_raw imported but unused (F401)


29-29: Do not use bare except (E722)

phlop/run/mpirun_stats_man.py

8-8: numpy imported but unused (F401)


9-9: psutil imported but unused (F401)


10-10: yaml imported but unused (F401)


12-12: phlop.dict.ValDict imported but unused (F401)


13-13: phlop.proc.run_raw imported but unused (F401)


45-45: Do not use bare except (E722)

phlop/run/test_cases.py

106-106: Do not assign a lambda expression, use a def (E731)


109-109: Local variable is_valid is assigned to but never used (F841)


110-110: Do not assign a lambda expression, use a def (E731)


163-163: Local variable e is assigned to but never used (F841)


168-168: Do not use bare except (E722)

phlop/testing/test_cases.py

16-16: phlop.proc.run imported but unused (F401)


170-170: Local variable test_cases is assigned to but never used (F841)

phlop/app/stats_man.py

129-129: f-string without any placeholders (F541)

Additional comments not posted (8)
phlop/run/stats_man.py (1)

19-25: Ensure proper instantiation and method calls to RuntimeStatsManager.

Verification successful

The instantiation and method calls to RuntimeStatsManager in the phlop/run/stats_man.py and phlop/run/mpirun_stats_man.py files appear to be correct. The class definition and its methods in phlop/app/stats_man.py also seem to be properly implemented.

  • phlop/run/stats_man.py:

    statsman = sman.RuntimeStatsManager(cli_args, info).join()
  • phlop/run/mpirun_stats_man.py:

    statsman = sman.RuntimeStatsManager(cli_args, info).join()
  • phlop/app/stats_man.py:

    class RuntimeStatsManager:
        def __init__(self, cli_args, info={}):
            self.proc = run_raw(cli_args.remaining, quiet=cli_args.quiet)
            self.pid = self.proc.pid
            self.cli_args = cli_args
    
            if self.cli_args.yaml:
                init_yaml(self.cli_args, self.pid, info)
    
            self.pqueue = Queue()
            self.data = {}
            self.p = Process(target=RuntimeStatsManager._run, args=(self,))
            self.p.start()
            self.data = None
            if cli_args.summary:
                self.data = self.pqueue.get()

The instantiation and method calls are consistent with the class definition and its constructor parameters.

Scripts executed

The following scripts were executed for the analysis:


Script:

#!/bin/bash
# Description: Verify proper instantiation and method calls to `RuntimeStatsManager`.

# Test: Search for the instantiation and method usage. Expect: Proper usage with correct parameters.
rg --type python $'RuntimeStatsManager'

Length of output: 69



Script:

#!/bin/bash
# Description: Verify proper instantiation and method calls to `RuntimeStatsManager`.

# Test: Search for the instantiation and method usage. Expect: Proper usage with correct parameters.
rg --type py $'RuntimeStatsManager'

Length of output: 433



Script:

#!/bin/bash
# Description: Extract relevant code snippets for detailed review.

# Extract the instantiation and method usage in phlop/run/stats_man.py
rg --type py -A 5 -B 5 'RuntimeStatsManager' phlop/run/stats_man.py

# Extract the instantiation and method usage in phlop/run/mpirun_stats_man.py
rg --type py -A 5 -B 5 'RuntimeStatsManager' phlop/run/mpirun_stats_man.py

# Extract the class definition and method usage in phlop/app/stats_man.py
rg --type py -A 5 -B 5 'RuntimeStatsManager' phlop/app/stats_man.py

Length of output: 1899

phlop/app/stats_man.py (7)

29-34: LGTM! The use of dataclass and default_factory for lists is appropriate here.


85-86: Simple and effective function for converting bytes to megabytes.


89-90: Using UTC time for timestamps is a good practice to avoid timezone issues.


119-129: Consider using a context manager for file operations to ensure that files are always closed properly, even if an error occurs.

-    with open(file, "w") as f:
+    with open(file, "w", encoding='utf-8') as f:

Likely invalid or redundant comment.

Tools
Ruff

129-129: f-string without any placeholders (F541)


129-129: Correct the f-string to include dynamic content or convert it to a regular string if dynamic content is not needed.

- f.write(f"snapshots:\n")
+ f.write("snapshots:\n")

Likely invalid or redundant comment.

Tools
Ruff

129-129: f-string without any placeholders (F541)


101-107: Efficient gathering of process statistics. Consider adding error handling for potential failures in accessing process information.

Verification successful

The function capture_now is used within a try-except block that handles psutil.AccessDenied exceptions. This indicates that there is some level of error handling for potential failures in accessing process information.

  • phlop/app/stats_man.py: The usage of capture_now within a try-except block.
Scripts executed

The following scripts were executed for the analysis:


Script:

#!/bin/bash
# Description: Verify robust error handling in process statistics gathering.

# Test: Search for the function usage. Expect: Error handling for accessing process information.
rg --type python $'capture_now'

Length of output: 61



Script:

#!/bin/bash
# Description: Verify robust error handling in process statistics gathering.

# Test: Search for the function usage. Expect: Error handling for accessing process information.
rg --type py $'capture_now'

Length of output: 148



Script:

#!/bin/bash
# Description: Extract lines around the function usage to inspect for error handling.

# Extract 5 lines before and after the function usage
rg --type py -A 5 -B 5 $'capture_now' phlop/app/stats_man.py

Length of output: 914


59-67: Ensure that the CLI argument interval is always an integer. Consider adding more robust error handling for other potential issues with CLI arguments.

phlop/run/stats_man.py Outdated Show resolved Hide resolved
Comment on lines +70 to +78
def check_pid(pid):
"""Check For the existence of a unix pid."""
if not pid:
return False
try:
os.kill(pid, 0)
except OSError:
return False
return True
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Good use of os.kill for process checking, but consider handling specific OSError exceptions to provide more detailed error messages.

-    except OSError:
+    except OSError as e:
+        logger.error(f"Failed to check PID: {e}")
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Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation.

Suggested change
def check_pid(pid):
"""Check For the existence of a unix pid."""
if not pid:
return False
try:
os.kill(pid, 0)
except OSError:
return False
return True
def check_pid(pid):
"""Check For the existence of a unix pid."""
if not pid:
return False
try:
os.kill(pid, 0)
except OSError as e:
logger.error(f"Failed to check PID: {e}")
return False
return True

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this function is just for checking if the process is still alive, OSError just means it's not running anymore

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@PhilipDeegan, thank you for the clarification. You're right; in the context of simply checking if a process is alive, handling the OSError to log an error might indeed be unnecessary and could lead to log clutter. The current implementation is succinct and appropriate for its intended use. I appreciate your insight on this!

Comment on lines +37 to +56
def cli_args_parser():
import argparse

_help = ValDict(
quiet="Redirect output to /dev/null",
interval="Seconds between process stat capture",
yaml="write yaml file during execution",
summary="prints summary on end",
)
parser = argparse.ArgumentParser()
parser.add_argument("remaining", nargs=argparse.REMAINDER)
parser.add_argument(
"-q", "--quiet", action="store_true", default=False, help=_help.quiet
)
parser.add_argument(
"-i", "--interval", default=_default_interval, help=_help.interval
)
parser.add_argument("-y", "--yaml", default=None, help=_help.interval)
parser.add_argument("-s", "--summary", action="store_true", default=True)
return parser
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Tip

Codebase Verification

The search results indicate that there is some handling of the interval and yaml arguments, but there is no explicit validation logic for these arguments in the provided code snippets. Specifically:

  • The interval argument is converted to an integer in phlop/app/stats_man.py and phlop/run/mpirun_stats_man.py, but there is no check to ensure it is within a valid range or format.
  • The yaml argument is checked for its presence and used to generate YAML files, but there is no validation to ensure it is a valid file path or has the correct format.

Consider adding validation logic for the interval and yaml CLI arguments to ensure they meet expected formats or constraints.

  • phlop/app/stats_man.py: Add validation for interval and yaml arguments.
  • phlop/run/mpirun_stats_man.py: Add validation for interval and yaml arguments.
Analysis chain

Consider validating the interval and yaml CLI arguments to ensure they meet expected formats or constraints.

Scripts executed

The following scripts were executed for the analysis:


Script:

#!/bin/bash
# Description: Verify that the CLI arguments are validated correctly.

# Test: Search for the function usage. Expect: Validation logic for CLI arguments.
rg --type python $'cli_args_parser'

Length of output: 65



Script:

#!/bin/bash
# Description: Verify that the CLI arguments are validated correctly.

# Test: Search for the function definition and usage. Expect: Validation logic for CLI arguments.
rg --type-add 'py:*.py' --type py 'def cli_args_parser'
rg --type-add 'py:*.py' --type py 'cli_args_parser()'

Length of output: 479



Script:

#!/bin/bash
# Description: Verify that the CLI arguments are validated correctly.

# Test: Search for validation logic for `interval` and `yaml` CLI arguments.
rg --type-add 'py:*.py' --type py 'interval' phlop/run/test_cases.py phlop/run/mpirun_stats_man.py phlop/run/stats_man.py phlop/app/stats_man.py
rg --type-add 'py:*.py' --type py 'yaml' phlop/run/test_cases.py phlop/run/mpirun_stats_man.py phlop/run/stats_man.py phlop/app/stats_man.py

Length of output: 2398

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the funciton verify_cli_args validates the arguments

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@PhilipDeegan, thank you for pointing out the verify_cli_args function. I've reviewed its implementation across different modules, and here's what I found:

  1. General Validation:

    • The interval argument is converted to an integer, and an exception is raised if it's not convertible, ensuring it's a valid integer.
    • There is no range checking for interval, which might be something to consider if there are expected limits.
  2. YAML Argument Handling:

    • The yaml argument is checked for its presence, and if present, it modifies other settings (e.g., setting summary to False). However, there's no validation to ensure it's a valid file path or that it has the correct format. Additionally, in the mpirun_stats_man.py, the yaml filename is modified to include the MPI rank, which is a nice touch for parallel executions.

Given this, the validation for interval is indeed present as you mentioned. However, the handling of the yaml argument might still benefit from some enhancements, such as validating the file path format. This could prevent potential errors during file operations.

Would you like to consider adding such validations, or do you have other preferences for handling these arguments?

Analysis chain
Scripts executed

The following scripts were executed for the analysis:


Script:

#!/bin/bash
# Description: Fetch the implementation of the `verify_cli_args` function to verify its validation logic.

# Search for the implementation of `verify_cli_args` in Python files.
rg --type-add 'py:*.py' --type py 'def verify_cli_args' -C 10

Length of output: 3693

Comment on lines 110 to 117
def append_yaml(file, pid):
keys = list(now(pid).keys())
stats = now(pid)
vals = {"v": ",".join([str(stats[key]) for key in keys])}
sdump = "- " + yaml.dump(vals, indent=2)
with open(file, "a") as f:
f.write(sdump)

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Tip

Codebase Verification

The append_yaml function does not currently handle potential I/O errors or include logging mechanisms. It is recommended to add error handling to ensure the robustness of the function.

  • File: phlop/app/stats_man.py
  • Lines: 110-117
Analysis chain

Ensure that the YAML file is being written correctly and handle potential I/O errors.

Scripts executed

The following scripts were executed for the analysis:


Script:

#!/bin/bash
# Description: Verify correct handling of YAML file operations.

# Test: Search for the function usage. Expect: Correct handling of YAML file operations.
rg --type python $'append_yaml'

Length of output: 61



Script:

#!/bin/bash
# Description: Verify correct handling of YAML file operations.

# Test: Search for the function usage. Expect: Correct handling of YAML file operations.
rg --glob '*.py' 'append_yaml'

Length of output: 166



Script:

#!/bin/bash
# Description: Verify error handling in the append_yaml function.

# Test: Search for try-except blocks or error handling within the append_yaml function.
ast-grep --lang python --pattern $'def append_yaml(file, pid):\n  $$$\n  try:\n    $$$\n  except:\n    $$$\n  $$$'

Length of output: 109



Script:

#!/bin/bash
# Description: Verify logging or other error handling mechanisms in the append_yaml function.

# Test: Search for logging or error handling within the append_yaml function.
ast-grep --lang python --pattern $'def append_yaml(file, pid):\n  $$$\n  logging.$$$\n  $$$'

Length of output: 90

phlop/run/mpirun_stats_man.py Outdated Show resolved Hide resolved
except (Exception, SystemExit) as e:
logger.exception(e)
parser.print_help()
except:
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Replace bare except with a more specific exception handling.

- except:
+ except Exception as e:
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Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation.

Suggested change
except:
except Exception as e:
Tools
Ruff

45-45: Do not use bare except (E722)

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this is for unknown exceptions

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@PhilipDeegan, I understand your intention to catch all unexpected errors that might not be explicitly handled elsewhere. Using a bare except can indeed catch all exceptions, including system-exiting ones like SystemExit and KeyboardInterrupt. However, this approach might unintentionally suppress important signals that should normally terminate the program.

A more targeted approach, which aligns with Python best practices, is to catch Exception. This will still catch all standard errors (which are nearly all exceptions you might typically expect), but it won't interfere with system-exiting exceptions:

except Exception as e:
    # Handle unexpected errors
    logger.exception(e)

This way, your application can still handle unexpected errors robustly without risking suppression of exit signals. Would this adjustment work for your scenario?

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Exception is already handled

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@PhilipDeegan, thank you for your feedback. To ensure I fully understand and to provide the most accurate assistance, could you clarify if the handling of Exception you mentioned is part of the code not visible in the snippet provided? This will help in aligning the exception handling strategy with Python best practices while ensuring all scenarios are covered effectively.

@PhilipDeegan PhilipDeegan merged commit b434f67 into master Jun 6, 2024
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@PhilipDeegan PhilipDeegan deleted the next branch June 6, 2024 09:13
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