Update netcdf4 requirement from <=1.7.3,>=1.5.4 to >=1.5.4,<=1.7.4

[dependabot]

Resolves #2085
Updates the requirements on netcdf4 to permit the latest version.

Changelog

Sourced from netcdf4's changelog.

version 1.7.4 (tag v1.7.4rel)

• Make sure automatic conversion of character arrays <--> string arrays works for Unicode strings (issue #1440). (previously only worked correctly for encoding="ascii").
• Add netcdf plugins (blosc, zstd, bzip2) in wheels. Blosc plugin doesn't work in Windows wheels. Macos wheels now use conda provided libs. (PR #1450)
• Add windows/arm (PR #1453) and free-threaded python wheels (issue #1454). Windows wheels now use netcdf-c 4.9.3. WARNING: netcdf-c is not thread-safe and netcdf4-python does have internal locking so expect segfaults if you use netcdf4-python on multiple threads with free-threaded python. Users must exercise care to only call netcdf from a single thread.

version 1.7.3 (tag v1.7.3rel)

• Python 3.14 wheels (issue #1432)
• support os.PathLike arguments for Dataset.fromcdl and raise a FileNotFoundError if the cdl is missing and a FileExistsError if the nc file already exists (PR #1387)
• raise more informative error when trying to iterate or perform a membership operation on a Dataset (issue #1383)
• fix type hint for createEnumType (issue #1378)
• add python 3.13 to windows wheel builds (PR #1377)
• allow slicing of vlen and string variables with non-unitary strides (issue #1408).

version 1.7.2 (tag v1.7.2rel)

• add static type hints (PRs #1302, #1349)
• Expose nc_rc_set, nc_rc_get (via rc_set, rc_get module functions). (PR #1348)
• Add Variable.get_fill_value and allow fill_value='default' to set _FillValue attribute using default fill values. (issue #1374, PR #1375).
• Fix NETCDF3 endian error (issue #1373, PR #1355).

version 1.7.1 (tag v1.7.1rel)

• include nc_complex source code from v0.2.0 tag (instead of using submodule).
• add aarch64 wheels.

version 1.7.0 (tag v1.7.0rel)

• add support for complex numbers via auto_complex keyword to Dataset (PR #1295)
• fix for deprecated Cython DEF and IF statements using compatibility header with shims for unavailable functionality (PR #1277)
• use szip as the library name on Windows (PR #1304)
• add support for MS-MPI MPI_Message detection (PR #1305)
• fix for issue #1306 - surprising result when indexing vlen str with non-contiguous indices.
• Fix bug in set_collective introduced in PR #1277 (collective mode was always set).

version 1.6.5 (tag v1.6.5rel)

• fix for issue #1271 (mask ignored if bool MA assigned to uint8 var)

... (truncated)

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[f0uriest]

looks like this introduces some breaking changes in how strings are encoded

.

[github-actions]

Memory benchmark result

|               Test Name                |      %Δ      |    Master (MB)     |      PR (MB)       |    Δ (MB)    |    Time PR (s)     |  Time Master (s)   |
| -------------------------------------- | ------------ | ------------------ | ------------------ | ------------ | ------------------ | ------------------ |
  test_objective_jac_w7x                 |    2.80 %    |     3.897e+03      |     4.007e+03      |    109.23    |       38.45        |       36.44        |
  test_proximal_jac_w7x_with_eq_update   |   -0.62 %    |     6.567e+03      |     6.526e+03      |    -40.62    |       164.42       |       163.21       |
  test_proximal_freeb_jac                |   -0.36 %    |     1.321e+04      |     1.317e+04      |    -47.47    |       84.72        |       84.01        |
  test_proximal_freeb_jac_blocked        |    0.33 %    |     7.499e+03      |     7.523e+03      |    24.37     |       74.57        |       74.08        |
  test_proximal_freeb_jac_batched        |   -0.10 %    |     7.510e+03      |     7.502e+03      |    -7.82     |       73.07        |       73.68        |
  test_proximal_jac_ripple               |   -0.68 %    |     3.509e+03      |     3.485e+03      |    -23.90    |       66.09        |       65.97        |
  test_proximal_jac_ripple_bounce1d      |    2.93 %    |     3.467e+03      |     3.569e+03      |    101.76    |       77.53        |       78.84        |
  test_eq_solve                          |    1.09 %    |     2.022e+03      |     2.044e+03      |    22.02     |       94.62        |       95.03        |

For the memory plots, go to the summary of Memory Benchmarks workflow and download the artifact.

[dpanici]

netCDF 1.7.4 silently breaks the default behavior for stringtochar. I vote to just exclude this version from the pip list and close this PR @YigitElma @f0uriest @daniel-dudt

#2085

[github-actions]

|             benchmark_name             |         dt(%)          |         dt(s)          |        t_new(s)        |        t_old(s)        | 
| -------------------------------------- | ---------------------- | ---------------------- | ---------------------- | ---------------------- |
 test_build_transform_fft_midres         |     -3.21 +/- 3.84     | -2.76e-02 +/- 3.31e-02 |  8.34e-01 +/- 2.0e-02  |  8.62e-01 +/- 2.7e-02  |
 test_build_transform_fft_highres        |     -2.56 +/- 2.85     | -2.91e-02 +/- 3.23e-02 |  1.11e+00 +/- 2.1e-02  |  1.13e+00 +/- 2.4e-02  |
 test_equilibrium_init_lowres            |     +1.13 +/- 4.43     | +6.85e-02 +/- 2.68e-01 |  6.12e+00 +/- 2.6e-01  |  6.05e+00 +/- 6.0e-02  |
 test_objective_compile_atf              |     -3.71 +/- 2.84     | -3.09e-01 +/- 2.37e-01 |  8.03e+00 +/- 8.8e-02  |  8.34e+00 +/- 2.2e-01  |
 test_objective_compute_atf              |     +6.78 +/- 7.77     | +1.71e-04 +/- 1.95e-04 |  2.69e-03 +/- 1.3e-04  |  2.52e-03 +/- 1.5e-04  |
 test_objective_jac_atf                  |     +3.28 +/- 4.37     | +5.67e-02 +/- 7.56e-02 |  1.79e+00 +/- 6.3e-02  |  1.73e+00 +/- 4.2e-02  |
 test_perturb_1                          |     +1.07 +/- 2.31     | +1.65e-01 +/- 3.55e-01 |  1.55e+01 +/- 1.7e-01  |  1.54e+01 +/- 3.1e-01  |
 test_proximal_jac_atf                   |     +1.34 +/- 1.92     | +7.35e-02 +/- 1.05e-01 |  5.55e+00 +/- 9.4e-02  |  5.47e+00 +/- 4.7e-02  |
 test_proximal_freeb_compute             |     -1.26 +/- 2.69     | -2.06e-03 +/- 4.39e-03 |  1.61e-01 +/- 3.4e-03  |  1.63e-01 +/- 2.8e-03  |
 test_solve_fixed_iter                   |     +1.03 +/- 1.28     | +2.94e-01 +/- 3.67e-01 |  2.89e+01 +/- 2.7e-01  |  2.86e+01 +/- 2.5e-01  |
 test_objective_compute_ripple           |     -0.27 +/- 4.16     | -5.74e-04 +/- 8.76e-03 |  2.10e-01 +/- 7.2e-03  |  2.11e-01 +/- 5.0e-03  |
 test_objective_grad_ripple              |     +1.90 +/- 2.56     | +1.71e-02 +/- 2.30e-02 |  9.18e-01 +/- 1.7e-02  |  9.01e-01 +/- 1.5e-02  |
 test_build_transform_fft_lowres         |     -2.15 +/- 3.26     | -1.52e-02 +/- 2.31e-02 |  6.92e-01 +/- 1.7e-02  |  7.08e-01 +/- 1.5e-02  |
 test_equilibrium_init_medres            |     -0.68 +/- 6.76     | -3.98e-02 +/- 3.96e-01 |  5.82e+00 +/- 8.5e-02  |  5.86e+00 +/- 3.9e-01  |
 test_equilibrium_init_highres           |     -1.47 +/- 3.27     | -9.82e-02 +/- 2.18e-01 |  6.58e+00 +/- 1.7e-01  |  6.67e+00 +/- 1.3e-01  |
 test_objective_compile_dshape_current   |     +2.55 +/- 7.45     | +9.36e-02 +/- 2.74e-01 |  3.77e+00 +/- 2.0e-01  |  3.67e+00 +/- 1.8e-01  |
 test_objective_compute_dshape_current   |     +1.70 +/- 13.50    | +1.30e-05 +/- 1.03e-04 |  7.77e-04 +/- 7.2e-05  |  7.64e-04 +/- 7.4e-05  |
 test_objective_jac_dshape_current       |     +4.80 +/- 12.63    | +1.32e-03 +/- 3.48e-03 |  2.89e-02 +/- 2.0e-03  |  2.76e-02 +/- 2.8e-03  |
 test_perturb_2                          |     +3.19 +/- 1.54     | +5.32e-01 +/- 2.57e-01 |  1.72e+01 +/- 2.2e-01  |  1.67e+01 +/- 1.3e-01  |
 test_proximal_jac_atf_with_eq_update    |     +1.35 +/- 0.91     | +1.95e-01 +/- 1.32e-01 |  1.46e+01 +/- 1.2e-01  |  1.44e+01 +/- 4.9e-02  |
 test_proximal_freeb_jac                 |     +0.92 +/- 2.46     | +5.08e-02 +/- 1.36e-01 |  5.59e+00 +/- 1.2e-01  |  5.53e+00 +/- 5.5e-02  |
 test_solve_fixed_iter_compiled          |     +0.44 +/- 1.93     | +3.90e-02 +/- 1.69e-01 |  8.81e+00 +/- 9.3e-02  |  8.77e+00 +/- 1.4e-01  |
 test_LinearConstraintProjection_build   |     -2.66 +/- 2.34     | -2.29e-01 +/- 2.02e-01 |  8.38e+00 +/- 1.9e-01  |  8.61e+00 +/- 6.9e-02  |
 test_objective_compute_ripple_bounce1d  |     -2.61 +/- 6.40     | -7.61e-03 +/- 1.87e-02 |  2.84e-01 +/- 1.4e-02  |  2.92e-01 +/- 1.2e-02  |
 test_objective_grad_ripple_bounce1d     |     +0.24 +/- 3.95     | +2.60e-03 +/- 4.31e-02 |  1.09e+00 +/- 4.0e-02  |  1.09e+00 +/- 1.7e-02  |

Github CI performance can be noisy. When evaluating the benchmarks, developers should take this into account.

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 94.53%. Comparing base (f2fcecc) to head (178b522).
⚠️ Report is 2 commits behind head on master.

Additional details and impacted files

@@            Coverage Diff             @@
##           master    #2050      +/-   ##
==========================================
+ Coverage   94.02%   94.53%   +0.51%     
==========================================
  Files         102      102              
  Lines       28785    28785              
==========================================
+ Hits        27064    27213     +149     
+ Misses       1721     1572     -149     

see 15 files with indirect coverage changes

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