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Cu mixd io / typo fixes #214

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@j042 j042 commented Jun 29, 2024

This PR create an internal-use function to write a big endian file. It doesn't need to be part of API, just useful if you have extra arrays to export, e.g., mprd.

Also, typo fixes

Summary by CodeRabbit

  • Bug Fixes

    • Corrected the iteration over dictionary values for improved consistency in configuration handling.
  • New Features

    • Standardized endianness handling for reading and writing data in mesh files.
    • Introduced helper functions for array manipulation and optimized file writing.
  • Refactor

    • Updated the order of arguments in mesh export functions for better consistency.
  • Examples

    • Updated code examples to align with new argument order in mesh export functions.

@j042 j042 requested a review from clemens-fricke June 29, 2024 13:21
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coderabbitai bot commented Jun 29, 2024

Walkthrough

The recent updates to the codebase focus on refining data processing and export functionalities. Key enhancements involve iterating over correct dictionary structures, standardizing endianness handling, optimizing file writing operations, and adjusting argument orders for export functions to enhance code consistency and maintainability.

Changes

Files/Modules Change Summary
gustaf/helpers/options.py Adjusted the loop to iterate over _valid_options instead of _valid_option in the __repr__ method.
gustaf/io/mixd.py Standardized endianness handling for reading/writing data, added helper functions for raveling arrays, optimized file writing.
examples/export_meshio.py Swapped the order of arguments in mesh data export calls for various formats.
examples/mixd_to_nutils.py Reordered arguments in the export function for mixd and nutils modules from (mesh, filename) to (filename, mesh).

Poem

In coding fields where bytes align,
Options changed, the loops refined.
Big-endian danced with mesh in rows,
Export paths now snug, they flow.
With every tweak and function sweet,
Our code grows strong, a wondrous feat.
🐇✨


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Actionable comments posted: 0

Review details

Configuration used: CodeRabbit UI
Review profile: ASSERTIVE

Commits

Files that changed from the base of the PR and between e1a12b5 and fcac890.

Files selected for processing (2)
  • gustaf/helpers/options.py (1 hunks)
  • gustaf/io/mixd.py (6 hunks)
Additional comments not posted (13)
gustaf/io/mixd.py (12)

18-19: LGTM!

The introduction of _big_endian_int and _big_endian_double constants ensures consistent endianness handling.


79-79: Ensure consistent endianness handling for vertices.

The dtype parameter for np.fromfile has been updated to use _big_endian_double, ensuring consistent endianness handling for vertices.


84-86: Ensure consistent endianness handling for connectivity.

The dtype parameter for np.fromfile has been updated to use _big_endian_int, ensuring consistent endianness handling for connectivity.


93-93: Ensure consistent endianness handling for boundary conditions.

The dtype parameter for np.fromfile has been updated to use _big_endian_int, ensuring consistent endianness handling for boundary conditions.


123-130: LGTM!

The _ravel function is a useful helper for array manipulation.


132-144: LGTM!

The _write_raveled_int function ensures consistent endianness handling for integer data.


146-158: LGTM!

The _write_raveled_double function ensures consistent endianness handling for double data.


224-224: Ensure consistent endianness handling for vertex data.

The vertex data is now written using _write_raveled_double, ensuring consistent endianness handling.


229-229: Ensure consistent endianness handling for space-time vertex data.

The space-time vertex data is now written using _write_raveled_double, ensuring consistent endianness handling.


233-234: Ensure consistent endianness handling for connectivity data.

The connectivity data is now written using _write_raveled_int, ensuring consistent endianness handling.


241-241: Ensure consistent endianness handling for boundary conditions.

The boundary conditions are now written using _write_raveled_int, ensuring consistent endianness handling.


288-288: Ensure consistent endianness handling for dual information.

The dual information is now written using _write_raveled_int, ensuring consistent endianness handling.

gustaf/helpers/options.py (1)

278-278: Fix iteration over valid options.

The loop iteration has been correctly updated to _valid_options.values().

@clemens-fricke
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So some of the examples are failing. specifically export_meshio and mixd_to_nutils. I will quickly check what the issue is.

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Actionable comments posted: 2

Review details

Configuration used: CodeRabbit UI
Review profile: ASSERTIVE

Commits

Files that changed from the base of the PR and between fcac890 and d13a9f9.

Files selected for processing (2)
  • examples/export_meshio.py (1 hunks)
  • examples/mixd_to_nutils.py (1 hunks)
Additional comments not posted (2)
examples/mixd_to_nutils.py (1)

11-12: Verify the argument order in export function calls.

Ensure that the export function in gus.io.mixd and gus.io.nutils modules accepts arguments in the order (filename, mesh).

Verification successful

The argument order in export function calls is correct.

The export function definitions in gustaf/io/mixd.py and gustaf/io/nutils.py accept arguments in the order (fname, mesh), which matches the usage in examples/mixd_to_nutils.py.

Scripts executed

The following scripts were executed for the analysis:


Script:

#!/bin/bash
# Description: Verify the argument order in export function calls.

# Test: Search for the `export` function definitions. Expect: The argument order should be `(filename, mesh)`.
rg --type python 'def export' | rg 'export\(filename, mesh\)'

Length of output: 94



Script:

#!/bin/bash
# Description: Verify the argument order in export function calls.

# Test: Search for the `export` function definitions. Expect: The argument order should be `(filename, mesh)`.
rg 'def export' | rg 'export\(filename, mesh\)'

Length of output: 49



Script:

#!/bin/bash
# Description: Verify the argument order in export function calls.

# Test: Search for all `export` function definitions and display their argument lists.
rg 'def export'

Length of output: 206

examples/export_meshio.py (1)

47-47: Verify the argument order in export function calls.

Ensure that the export function in gus.io.meshio module accepts arguments in the order (mesh, export_path).

examples/export_meshio.py Show resolved Hide resolved
examples/export_meshio.py Show resolved Hide resolved
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With the example fix, I see no Problems. Since I am not using mixd heavily, I can not say anything application-specific, but it looks good. Thank you for your work.

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2 participants