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fix float precision problem of se_atten in line 217 (#3961) #3978

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merged 81 commits into from
Jul 18, 2024

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LiuGroupHNU
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@LiuGroupHNU LiuGroupHNU commented Jul 15, 2024

fix float precision problem of se_atten in line 217.
fix the bug: the different energy between qnn and lammps

Summary by CodeRabbit

  • New Features

    • Improved energy calculation methods for more accurate results in the wrap module.
    • Introduced new parameters for enhanced configurability in energy-related computations.
  • Improvements

    • Enhanced handling and processing of energy shift arrays for better performance and accuracy.
    • Updated array manipulation and calculation methods for various wrapping functionalities.

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coderabbitai bot commented Jul 15, 2024

Walkthrough

Walkthrough

The recent changes to the deepmd/tf/nvnmd module include modifications to the se_atten.py and wrap.py files. In se_atten.py, the two_embd_value assignment is updated. In wrap.py, several methods (wrap, wrap_head, wrap_dscp, wrap_map, and wrap_lut) are modified to enhance array manipulations, introduce new parameters, and adjust calculations for energy shifts and array handling.

Changes

File Change Summary
deepmd/tf/nvnmd/descriptor/se_atten.py two_embd_value assignment is modified by applying the GLOBAL_NP_FLOAT_PRECISION function.
deepmd/tf/nvnmd/entrypoints/wrap.py Multiple methods (wrap, wrap_head, wrap_dscp, wrap_map, wrap_lut) are updated for array handling, including the addition of parameters, adjustments to calculations, and array manipulations.

Sequence Diagram(s)

sequenceDiagram
    participant User
    participant wrap.py
    participant se_atten.py

    User->>wrap.py: Call wrap_head with ener_fact
    wrap.py->>wrap.py: Calculate atom_ener_shift
    wrap.py->>wrap.py: Process atom_ener_shift elements
    User->>wrap.py: Call wrap_lut
    wrap.py->>wrap.py: Reshape arrays
    wrap.py->>wrap.py: Perform matrix multiplication
    User->>se_atten.py: Assign two_embd_value
    se_atten.py->>se_atten.py: Apply GLOBAL_NP_FLOAT_PRECISION
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Recent review details

Configuration used: CodeRabbit UI
Review profile: CHILL

Commits

Files that changed from the base of the PR and between 47cba4d and 627f901.

Files selected for processing (1)
  • deepmd/tf/nvnmd/entrypoints/wrap.py (3 hunks)
Files skipped from review as they are similar to previous changes (1)
  • deepmd/tf/nvnmd/entrypoints/wrap.py

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codecov bot commented Jul 15, 2024

Codecov Report

Attention: Patch coverage is 91.66667% with 1 line in your changes missing coverage. Please review.

Project coverage is 82.83%. Comparing base (bd02ccc) to head (627f901).
Report is 122 commits behind head on devel.

Files with missing lines Patch % Lines
deepmd/tf/nvnmd/entrypoints/wrap.py 90.90% 1 Missing ⚠️
Additional details and impacted files
@@            Coverage Diff             @@
##            devel    #3978      +/-   ##
==========================================
+ Coverage   82.82%   82.83%   +0.01%     
==========================================
  Files         520      522       +2     
  Lines       50869    50884      +15     
  Branches     3020     3015       -5     
==========================================
+ Hits        42134    42152      +18     
+ Misses       7798     7796       -2     
+ Partials      937      936       -1     

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

@njzjz
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njzjz commented Jul 15, 2024

Could you rebase the branch - there are too many unrelated commits

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Actionable comments posted: 0

Outside diff range, codebase verification and nitpick comments (2)
deepmd/tf/nvnmd/entrypoints/wrap.py (2)

166-166: Add a docstring for the new parameter.

The new parameter ener_fact is added, but its purpose is not documented.

        ener_fact  factor for atom_ener
+       ener_fact  factor for adjusting atom_ener precision

229-229: Remove debug print statement.

The debug print statement should be removed or replaced with proper logging.

-        print(atom_ener_shift)
+        log.debug(f"atom_ener_shift: {atom_ener_shift}")

@njzjz njzjz added this pull request to the merge queue Jul 18, 2024
Merged via the queue into deepmodeling:devel with commit 6199b03 Jul 18, 2024
60 checks passed
mtaillefumier pushed a commit to mtaillefumier/deepmd-kit that referenced this pull request Sep 18, 2024
… (deepmodeling#3978)

fix float precision problem of se_atten in line 217.
fix the bug: the different energy between qnn and lammps

<!-- This is an auto-generated comment: release notes by coderabbit.ai
-->
## Summary by CodeRabbit

- **New Features**
- Improved energy calculation methods for more accurate results in the
`wrap` module.
- Introduced new parameters for enhanced configurability in
energy-related computations.

- **Improvements**
- Enhanced handling and processing of energy shift arrays for better
performance and accuracy.
- Updated array manipulation and calculation methods for various
wrapping functionalities.
<!-- end of auto-generated comment: release notes by coderabbit.ai -->

---------

Co-authored-by: LiuGroupHNU <liujie123@HNU>
Co-authored-by: MoPinghui <mopinghui1020@gmail.com>
Co-authored-by: Han Wang <92130845+wanghan-iapcm@users.noreply.github.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Pinghui Mo <pinghui_mo@outlook.com>
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[BUG] TypeError from training NvNMD QNN model (-s s2) with float precision
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