quicker alf

[PhilipDeegan]

Summary by CodeRabbit

• New Features

  • Updated the method for retrieving domain size to accept a time parameter, allowing more dynamic data processing based on time context.
  • Enhanced diagnostic configuration by introducing a flush_every parameter for more efficient data handling during simulations.

• Bug Fixes

  • Removed unnecessary import statements in various test files to streamline dependencies and improve maintainability.

• Chores

  • Cleaned up import statements across multiple test scripts for better readability.

[coderabbitai]

Walkthrough

Walkthrough

The recent changes enhance flexibility and clarity across multiple components of the codebase. The Run class now supports a default_time parameter, improving data handling by reducing the need for explicit time inputs. Diagnostic classes in tests have been updated for better data output control, and unnecessary import statements have been removed throughout, streamlining the code and improving maintainability.

Changes

File(s)	Change Summary
pyphare/.../run/run.py	Introduced default_time parameter in Run class and modified _get method to accept a time argument for dynamic behavior.
tests/functional/alfven_wave/alfven_wave1d.py	Added final_time and time_step_nbr for clearer simulation configuration and updated timestamp generation.
tests/functional/dispersion/dispersion.py	Added flush_every=0 to diagnostics calls and removed matplotlib.pyplot import.
tests/functional/conservation/conserv.py	Removed unused import statement for the os module.
tests/functional/ionIonBeam/ion_ion_beam1d.py	Removed several unused imports to streamline the import section.

---

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[coderabbitai]

Actionable comments posted: 0

Review details

Configuration used: .coderabbit.yaml
Review profile: CHILL

Commits

Files that changed from the base of the PR and between 7209309 and 4e2233d.

Files selected for processing (5)

• pyphare/pyphare/pharesee/run/run.py (1 hunks)
• tests/functional/alfven_wave/alfven_wave1d.py (2 hunks)
• tests/functional/conservation/conserv.py (1 hunks)
• tests/functional/dispersion/dispersion.py (1 hunks)
• tests/functional/ionIonBeam/ion_ion_beam1d.py (1 hunks)

Files skipped from review due to trivial changes (3)

• tests/functional/conservation/conserv.py
• tests/functional/dispersion/dispersion.py
• tests/functional/ionIonBeam/ion_ion_beam1d.py

Additional comments not posted (3)

tests/functional/alfven_wave/alfven_wave1d.py (2)

94-96: Verify the impact of flush_every=0 on performance.

The addition of flush_every=0 to ElectromagDiagnostics makes the data flushing behavior more explicit. Verify that this change does not negatively impact performance or data handling during simulations.

---

99-101: Verify the impact of flush_every=0 on performance.

The addition of flush_every=0 to FluidDiagnostics makes the data flushing behavior more explicit. Verify that this change does not negatively impact performance or data handling during simulations.

pyphare/pyphare/pharesee/run/run.py (1)

72-72: Verify the impact of the time-dependent GetDl method.

The GetDl method now takes a time parameter, making the domain size retrieval time-dependent. Verify that this change correctly integrates with the rest of the code and does not introduce any unexpected behavior in data processing.

[coderabbitai]

Actionable comments posted: 0

Outside diff range, codebase verification and nitpick comments (2)

pyphare/pyphare/pharesee/run/run.py (2)

36-38: Add a docstring for the new default_time parameter.

The new default_time parameter enhances flexibility. However, consider updating the docstring to document this parameter for better clarity.

def __init__(self, path, default_time=None):
    """
    Initialize the Run instance.

    :param path: Path to the data files.
    :param default_time: Optional default time for the run.
    """
    self.path = path
    self.default_time_ = default_time

---

252-259: Add a docstring for the _get_time function.

The new _get_time function improves robustness by ensuring a default time is used when no specific time is provided. However, consider adding a docstring to document this function for better clarity.

def _get_time():
    """
    Retrieve the time value.

    :return: The provided time, the default time, or the first available time from the data file.
    """
    if time:
        return time
    if self.default_time_:
        return self.default_time_
    self.default_time_ = float(list(data_file[h5_time_grp_key].keys())[0])
    return self.default_time_

Review details

Configuration used: .coderabbit.yaml
Review profile: CHILL

Commits

Files that changed from the base of the PR and between 4e2233d and de46cb3.

Files selected for processing (5)

• pyphare/pyphare/pharesee/run/run.py (3 hunks)
• tests/functional/alfven_wave/alfven_wave1d.py (3 hunks)
• tests/functional/conservation/conserv.py (1 hunks)
• tests/functional/dispersion/dispersion.py (1 hunks)
• tests/functional/ionIonBeam/ion_ion_beam1d.py (1 hunks)

Files skipped from review due to trivial changes (2)

• tests/functional/conservation/conserv.py
• tests/functional/ionIonBeam/ion_ion_beam1d.py

Files skipped from review as they are similar to previous changes (2)

• tests/functional/alfven_wave/alfven_wave1d.py
• tests/functional/dispersion/dispersion.py

Additional comments not posted (2)

pyphare/pyphare/pharesee/run/run.py (2)

73-73: LGTM! But verify the function calls to _get.

The code changes are approved.

However, ensure that all function calls to _get correctly pass the time parameter.

Verification successful

---

LGTM! All function calls to _get correctly pass the time parameter.

The code changes are approved, and the function calls have been verified to correctly pass the time parameter.

Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Verify all function calls to `_get` correctly pass the `time` parameter.

# Test: Search for the function usage. Expect: All occurrences correctly pass the `time` parameter.
rg --type python -A 5 $'_get('

Length of output: 92

---

Script:

#!/bin/bash
# Description: Verify all function calls to `_get` correctly pass the `time` parameter.

# Test: Search for the function usage. Expect: All occurrences correctly pass the `time` parameter.
rg --type python -A 5 '_get('

Length of output: 92

---

Script:

#!/bin/bash
# Description: Verify all function calls to `_get` correctly pass the `time` parameter.

# Test: Search for the function usage. Expect: All occurrences correctly pass the `time` parameter.
rg --type python -A 5 '_get\('

Length of output: 63

---

Script:

#!/bin/bash
# Description: Verify all function calls to `_get` correctly pass the `time` parameter.

# Test: Search for the function usage. Expect: All occurrences correctly pass the `time` parameter.
rg -A 5 '_get\(' --glob '*.py'

Length of output: 7342

---

260-260: LGTM! But verify the function calls to GetDl.

The code changes are approved.

However, ensure that all function calls to GetDl correctly pass the time parameter.

Verification successful

---

LGTM! The function calls to GetDl correctly pass the time parameter.

The code changes are approved.

Scripts executed

The following scripts were executed for the analysis:

Script:

#!/bin/bash
# Description: Verify all function calls to `GetDl` correctly pass the `time` parameter.

# Test: Search for the function usage. Expect: All occurrences correctly pass the `time` parameter.
rg --type python -A 5 $'GetDl('

Length of output: 95

---

Script:

#!/bin/bash
# Description: Verify all function calls to `GetDl` correctly pass the `time` parameter.

# Test: Search for the function usage. Expect: All occurrences correctly pass the `time` parameter.
rg --type python -A 5 'GetDl('

Length of output: 95

---

Script:

#!/bin/bash
# Description: Verify all function calls to `GetDl` correctly pass the `time` parameter.

# Test: Search for the function usage. Expect: All occurrences correctly pass the `time` parameter.
rg --type python -A 5 "GetDl("

Length of output: 95

---

Script:

#!/bin/bash
# Description: Verify all function calls to `GetDl` correctly pass the `time` parameter.

# Test: Search for the function usage. Expect: All occurrences correctly pass the `time` parameter.
rg --type python -A 5 "GetDl\("

Length of output: 64

---

Script:

#!/bin/bash
# Description: Verify all function calls to `GetDl` correctly pass the `time` parameter.

# Test: Search for the function usage. Expect: All occurrences correctly pass the `time` parameter.
rg -A 5 "GetDl\("

Length of output: 1436

[coderabbitai]

Actionable comments posted: 0

Review details

Configuration used: .coderabbit.yaml
Review profile: CHILL

Commits

Files that changed from the base of the PR and between de46cb3 and 90c19bb.

Files selected for processing (5)

• pyphare/pyphare/pharesee/run/run.py (3 hunks)
• tests/functional/alfven_wave/alfven_wave1d.py (4 hunks)
• tests/functional/conservation/conserv.py (1 hunks)
• tests/functional/dispersion/dispersion.py (2 hunks)
• tests/functional/ionIonBeam/ion_ion_beam1d.py (1 hunks)

Files skipped from review due to trivial changes (2)

• tests/functional/conservation/conserv.py
• tests/functional/ionIonBeam/ion_ion_beam1d.py

Files skipped from review as they are similar to previous changes (1)

• pyphare/pyphare/pharesee/run/run.py

Additional comments not posted (5)

tests/functional/dispersion/dispersion.py (2)

170-172: Approved: Added flush_every=0 to ph.ElectromagDiagnostics.

The addition of the flush_every=0 parameter ensures that the diagnostics flush their output after every data point, which could enhance the responsiveness of data processing during simulations.

---

175-177: Approved: Added flush_every=0 to ph.FluidDiagnostics.

The addition of the flush_every=0 parameter ensures that the diagnostics flush their output after every data point, which could enhance the responsiveness of data processing during simulations.

tests/functional/alfven_wave/alfven_wave1d.py (3)

26-27: Approved: Introduced final_time and time_step_nbr variables.

Introducing these variables before their use in the Simulation instantiation enhances readability and maintainability of the code.

---

32-33: Approved: Updated Simulation instantiation to use new variables.

The changes ensure that the simulation configuration is more explicit and easier to understand.

---

94-94: Approved: Updated timestamp generation method.

Using np.arange() for timestamp generation is a more straightforward and explicit approach, which improves readability and maintainability.

[coderabbitai]

Actionable comments posted: 0

Review details

Configuration used: .coderabbit.yaml
Review profile: CHILL

Commits

Files that changed from the base of the PR and between 90c19bb and 5a4c959.

Files selected for processing (2)

• tests/functional/alfven_wave/alfven_wave1d.py (4 hunks)
• tests/functional/dispersion/dispersion.py (2 hunks)

Files skipped from review as they are similar to previous changes (2)

• tests/functional/alfven_wave/alfven_wave1d.py
• tests/functional/dispersion/dispersion.py

[PhilipDeegan]

nightly build finishing now in 3 hours (rather than 6)

and cut 2000 seconds of the dispersion test

[nicolasaunai]

makes some functional tests faster (Alfvén and dispersion)