skpkg: change version build file.

[stevenhua0320]

@sbillinge Ready to a first round review. Note that the file that still needs to be in the next PR are setup.py and tests/conftest.py and I'm not sure where the edits made by package update breaks the test on my local.

(diffpy.pdffit2) ~/dbs/diffpy.pdffit2/diffpy.pdffit2 git:[scikit-update-3]
pytest
==================================================================== test session starts =====================================================================
platform darwin -- Python 3.13.9, pytest-9.0.1, pluggy-1.6.0
rootdir: /Users/huarundong/dbs/diffpy.pdffit2/diffpy.pdffit2
configfile: pyproject.toml
collected 0 items / 5 errors                                                                                                                                 

=========================================================================== ERRORS ===========================================================================
_________________________________________________________ ERROR collecting tests/test_exceptions.py __________________________________________________________
ImportError while importing test module '/Users/huarundong/dbs/diffpy.pdffit2/diffpy.pdffit2/tests/test_exceptions.py'.
Hint: make sure your test modules/packages have valid Python names.
Traceback:
/opt/miniconda3/envs/diffpy.pdffit2/lib/python3.13/importlib/__init__.py:88: in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
tests/test_exceptions.py:21: in <module>
    from diffpy.pdffit2 import PdfFit, pdffit2
E   ModuleNotFoundError: No module named 'diffpy.pdffit2'
___________________________________________________________ ERROR collecting tests/test_pdffit.py ____________________________________________________________
ImportError while importing test module '/Users/huarundong/dbs/diffpy.pdffit2/diffpy.pdffit2/tests/test_pdffit.py'.
Hint: make sure your test modules/packages have valid Python names.
Traceback:
/opt/miniconda3/envs/diffpy.pdffit2/lib/python3.13/importlib/__init__.py:88: in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
tests/test_pdffit.py:9: in <module>
    from diffpy.pdffit2 import PdfFit, pdffit2
E   ModuleNotFoundError: No module named 'diffpy.pdffit2'
_______________________________________________________ ERROR collecting tests/test_phase_fractions.py _______________________________________________________
ImportError while importing test module '/Users/huarundong/dbs/diffpy.pdffit2/diffpy.pdffit2/tests/test_phase_fractions.py'.
Hint: make sure your test modules/packages have valid Python names.
Traceback:
/opt/miniconda3/envs/diffpy.pdffit2/lib/python3.13/importlib/__init__.py:88: in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
tests/test_phase_fractions.py:9: in <module>
    from diffpy.pdffit2 import PdfFit
E   ModuleNotFoundError: No module named 'diffpy.pdffit2'
________________________________________________________ ERROR collecting tests/test_shape_factors.py ________________________________________________________
ImportError while importing test module '/Users/huarundong/dbs/diffpy.pdffit2/diffpy.pdffit2/tests/test_shape_factors.py'.
Hint: make sure your test modules/packages have valid Python names.
Traceback:
/opt/miniconda3/envs/diffpy.pdffit2/lib/python3.13/importlib/__init__.py:88: in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
tests/test_shape_factors.py:11: in <module>
    from diffpy.pdffit2 import PdfFit, pdffit2
E   ModuleNotFoundError: No module named 'diffpy.pdffit2'
___________________________________________________________ ERROR collecting tests/test_version.py ___________________________________________________________
ImportError while importing test module '/Users/huarundong/dbs/diffpy.pdffit2/diffpy.pdffit2/tests/test_version.py'.
Hint: make sure your test modules/packages have valid Python names.
Traceback:
/opt/miniconda3/envs/diffpy.pdffit2/lib/python3.13/importlib/__init__.py:88: in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
tests/test_version.py:3: in <module>
    import diffpy.pdffit2  # noqa
    ^^^^^^^^^^^^^^^^^^^^^
E   ModuleNotFoundError: No module named 'diffpy.pdffit2'
================================================================== short test summary info ===================================================================
ERROR tests/test_exceptions.py
ERROR tests/test_pdffit.py
ERROR tests/test_phase_fractions.py
ERROR tests/test_shape_factors.py
ERROR tests/test_version.py
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!! Interrupted: 5 errors during collection !!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
===================================================================== 5 errors in 0.21s ======================================================================

which is the same as the breaking CI here. Something that automatically deleted must break the import of the file.

[stevenhua0320]

@sbillinge I also commit the setup.py and conftest.py now for targeting where the autommatic update breaks the functionality. Right now the CI will definitely fail.

[sbillinge]

please see comments.

[sbillinge]

I think we want the version of conftest.py from the original, not from skpkg

[sbillinge]

we also want the original version of setup.py and not anything added by skpkg. This is needed because we are building c-code in this package.

[stevenhua0320]

@sbillinge The CI fails because of the incompatibility in pdffit.py

    def intro():
        """Show introductory message."""
        import re

        from diffpy.pdffit2 import __date__, __version__

        date = __date__[:10]
        d = {"version": __version__, "date": date, "year": date[:4] or "2019"}
        msg = __intro_message__ % d

        def filler(mx):
            return mx.group(0).rstrip(" *").ljust(77) + "*"

        msg_ljust = re.sub("(?m)^(.{1,77}|.{79}.*)$", filler, msg)
        print(msg_ljust, file=output.stdout)
        return

    intro = staticmethod(intro)

here it needs to import the __date__, however, in scikit-package, it only takes __version__ and did not use __date__. So, should we add the attribute of __date__ in version.py?

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 98.97%. Comparing base (f795440) to head (d352c09).
⚠️ Report is 13 commits behind head on migration.

Additional details and impacted files

@@            Coverage Diff             @@
##           migration     #151   +/-   ##
==========================================
  Coverage      98.97%   98.97%           
==========================================
  Files              6        6           
  Lines           1267     1270    +3     
==========================================
+ Hits            1254     1257    +3     
  Misses            13       13           

Files with missing lines	Coverage Δ
tests/test_exceptions.py	99.80% <100.00%> (+<0.01%)	⬆️
tests/test_pdffit.py	99.76% <100.00%> (+<0.01%)	⬆️
tests/test_phase_fractions.py	98.70% <100.00%> (ø)
tests/test_shape_factors.py	99.53% <100.00%> (+<0.01%)	⬆️

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[sbillinge]

We need to keep the old code in this module