8000 Python 3.12 incompatibilities · Issue #69 · abinit/abinit · GitHub
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ArrayBolt3 opened this issue Jan 21, 2024 · 3 comments
Open

Python 3.12 incompatibilities #69

ArrayBolt3 opened this issue Jan 21, 2024 · 3 comments

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@ArrayBolt3
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abinit is incapable of building or running unit tests on an Ubuntu 24.04 Alpha system with Python 3.12 installed.

Steps to reproduce:

  1. Install abinit's dependencies on a system.
  2. Ensure Python 3.12 is installed and that python3 --version shows that Python 3.12 is in use.
  3. Attempt to build abinit.

Expected result: The build should succeed.

Actual result: The build fails with error output similar to the following (copied from a failed abinit package build on Ubuntu 24.04):

make[1]: Entering directory '/<<PKGBUILDDIR>>'
if [ ! -f Makefile.am ]; then config/scripts/makemake; fi
/<<PKGBUILDDIR>>/config/scripts/makemake:254: SyntaxWarning: invalid escape sequence '\;'
  "find src -name '*.~[0-9]~' -exec rm -f {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:258: SyntaxWarning: invalid escape sequence '\;'
  "find . -depth -name 'tmp-*' -exec rm -rf {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:260: SyntaxWarning: invalid escape sequence '\;'
  "find src -name '*.old' -exec rm -f {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:262: SyntaxWarning: invalid escape sequence '\;'
  "find . -name '*.pyc' -o -name '*.pyo' -exec rm -f {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:264: SyntaxWarning: invalid escape sequence '\;'
  "find . -depth -name '__pycache__' -exec rm -rf {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:266: SyntaxWarning: invalid escape sequence '\;'
  "find shared/common/src -type l -exec rm -f {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:268: SyntaxWarning: invalid escape sequence '\;'
  "find src -type l -exec rm -f {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:283: SyntaxWarning: invalid escape sequence '\;'
  "find %s -name 'abinit.dep' -exec rm {} \;" % abinit_blocks[block])
/<<PKGBUILDDIR>>/config/scripts/makemake:285: SyntaxWarning: invalid escape sequence '\;'
  "find %s -name 'abinit.dir' -exec rm {} \;" % abinit_blocks[block])
/<<PKGBUILDDIR>>/config/scripts/makemake:289: SyntaxWarning: invalid escape sequence '\;'
  "find %s -name '*.abirules' -exec rm -f {} \;" % abinit_blocks[block])
/<<PKGBUILDDIR>>/config/scripts/makemake:291: SyntaxWarning: invalid escape sequence '\;'
  "find %s -name '*.abiauty' -exec rm -f {} \;" % abinit_blocks[block])
/<<PKGBUILDDIR>>/config/scripts/makemake:323: SyntaxWarning: invalid escape sequence '\;'
  "find %s -depth -name '.deps' -exec rm -rf {} \;" % dcln)
/<<PKGBUILDDIR>>/config/scripts/makemake:325: SyntaxWarning: invalid escape sequence '\;'
  "find %s -name Makefile.am -exec rm -f {} \;" % dcln)
/<<PKGBUILDDIR>>/config/scripts/makemake:327: SyntaxWarning: invalid escape sequence '\;'
  "find %s -name Makefile.in -exec rm -f {} \;" % dcln)
/<<PKGBUILDDIR>>/config/scripts/makemake:329: SyntaxWarning: invalid escape sequence '\;'
  "find %s -name Makefile -exec rm -f {} \;" % dcln)
/<<PKGBUILDDIR>>/config/scripts/makemake:331: SyntaxWarning: invalid escape sequence '\;'
  "find %s -name '*.a' -o -name '*.o' -exec rm {} \;" % dcln)
/<<PKGBUILDDIR>>/config/scripts/makemake:334: SyntaxWarning: invalid escape sequence '\;'
  "find %s -name '*.mod' -exec rm {} \;" % abinit_blocks[block])
/<<PKGBUILDDIR>>/config/scripts/makemake:336: SyntaxWarning: invalid escape sequence '\;'
  "find src -name '*.pickle' -exec rm {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:346: SyntaxWarning: invalid escape sequence '\;'
  "find src -name 'interfaces_*.F90' -exec rm {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:380: SyntaxWarning: invalid escape sequence '\;'
  "find . -name 'abinit.srcc' -exec rm {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:382: SyntaxWarning: invalid escape sequence '\;'
  "find . -name '*.py[co]' -exec rm {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:384: SyntaxWarning: invalid escape sequence '\;'
  "find . -depth -name '__pycache__' -exec rm -r {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:386: SyntaxWarning: invalid escape sequence '\;'
  "find . -depth -name '_project_py[23].pickle' -exec rm {} \;")
/<<PKGBUILDDIR>>/config/scripts/makemake:427: SyntaxWarning: invalid escape sequence '\('
  ac_version = re.sub(".*\(GNU Autoconf\) ", "", ac_version)
/<<PKGBUILDDIR>>/config/scripts/makemake:435: SyntaxWarning: invalid escape sequence '\('
  am_version = re.sub(".*\(GNU automake\) ", "", am_version)
/<<PKGBUILDDIR>>/config/scripts/makemake:443: SyntaxWarning: invalid escape sequence '\('
  lt_version = re.sub(".*\(GNU libtool\) ", "", lt_version)
    /<<PKGBUILDDIR>>/./config/scripts/make-macros-options:256: SyntaxWarning: invalid escape sequence '\.'
      ret += """ if test "${%s}" != ""; then
    /<<PKGBUILDDIR>>/./config/scripts/make-macros-options:284: SyntaxWarning: invalid escape sequence '\!'
      ret += """ if test "${%s}" != ""; then
    /<<PKGBUILDDIR>>/./config/scripts/make-macros-options:340: SyntaxWarning: invalid escape sequence '\!'
      ret += """ if test "${%s}" != ""; then
    
    /<<PKGBUILDDIR>>/./config/scripts/make-macros-corelibs:91: SyntaxWarning: invalid escape sequence '\.'
      if ( re.search("\.cf$",cnf_file) ):
    
    /<<PKGBUILDDIR>>/./config/scripts/make-macros-triggers:360: SyntaxWarning: invalid escape sequence '\.'
      if ( re.search("\.cf$",cnf_file) ):
    
    /<<PKGBUILDDIR>>/./config/scripts/make-macros-output:102: SyntaxWarning: invalid escape sequence '\.'
      if ( re.search("\.cf$",cnf_file) ):
    
    /<<PKGBUILDDIR>>/./config/scripts/make-symlink-maker:84: SyntaxWarning: invalid escape sequence '\.'
      if ( re.search("\.cf$",cnf_file) ):
    
    /<<PKGBUILDDIR>>/./config/scripts/clean-build-examples:34: SyntaxWarning: invalid escape sequence '\.'
      re_cf = re.compile("\.cf$")
    
    /<<PKGBUILDDIR>>/./config/scripts/make-cppopts-dumper:32: SyntaxWarning: invalid escape sequence '\s'
      cppopts_dumper_module = """\
    /<<PKGBUILDDIR>>/./config/scripts/make-cppopts-dumper:147: SyntaxWarning: invalid escape sequence '\.'
      re_m4file  = re.compile("\.m4$")
    

       ****************************************************************
       ***                     FATAL ERROR!                         ***
       ****************************************************************
       *** The abisrc.py script returned a non-zero exit status.    ***
       *** This usually means that the script found subroutines or  ***
       *** functions that are not declared inside modules or that   ***
       *** there is a syntax error in the Fortran code or a bug     ***
       *** See above error message.                                 ***
       ****                                                         ***
       *** Please note that procedures outside Fortran modules are  ***
       *** not allowed any longer. See abisrc.stderr for details    ***
       *** about the errors.                                        ***
       ****************************************************************
[makemake] Aborting now
[makemake] Starting at 2024/01/21 22:02:00 +0000
[makemake] -------------------------------------
[makemake] === Source tree consistency ===
[makemake]   Enabling write permission for all dirs & files
[makemake] === Build system update ===
[makemake]   Resetting configuration dumper
[makemake]   Generating macros for the Autotools
[makemake]   Generating macros for dumpers
[makemake]   Generating macros for environment variables
[makemake]   Generating macros for command-line options
[makemake]   Generating macros for hints
[makemake]   Generating macros for debugging
[makemake]   Generating macros for default optimizations
[makemake]   Generating macros for per-directory optimizations
[makemake]   Generating macros for core libraries
[makemake]   Generating macros for feature triggers
[makemake]   Generating macros for configure output
[makemake]   Generating source split symlink maker
[makemake] === Source tree update ===
[makemake]   Removing build examples
[makemake]   Generating build examples
[makemake]   Generating CPP option dumper
[makemake] ---> running ./abisrc.py makemake > abisrc.stdout 2> abisrc.stderr
make[1]: *** [debian/rules:36: override_dh_autoreconf] Error 1
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:16: build] Error 2

This is not the only Python 3.12 incompatibility, but it's a rather easily visible one. As Ubuntu 24.04 is not expected to ship with Python 3.11, it would be helpful for abinit to have Python 3.12 support.

Note: I know next to nothing about abinit, but if it would be helpful, I can try to find the Python 3.12 incompatibilities and fix them.
@ArrayBolt3
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abisrc.stderr from failed build:

/build/abinit-7a5fBd/abinit-9.10.4/fkiss/regex.py:126: SyntaxWarning: invalid escape sequence '\s'
  RE_SUBCALL = re.compile("^(?:if\s*\(.*\)\s*)?call\s+(?P<name>\w+)", re.I)
/build/abinit-7a5fBd/abinit-9.10.4/fkiss/regex.py:165: SyntaxWarning: invalid escape sequence '\s'
  RE_TYPECLASS_DEC = re.compile('^(?P<ftype>(type|class))\s*\(\s*(?P<name>\w+)\s*\)', re.I)
/build/abinit-7a5fBd/abinit-9.10.4/fkiss/regex.py:174: SyntaxWarning: invalid escape sequence '\s'
  RE_INCLUDE = re.compile("#?include\s+(?P<path>.+)", re.I)
Traceback (most recent call last):
  File "/build/abinit-7a5fBd/abinit-9.10.4/./abisrc.py", line 416, in <module>
    sys.exit(main())
             ^^^^^^
  File "/build/abinit-7a5fBd/abinit-9.10.4/./abisrc.py", line 257, in main
    proj = AbinitProject(".", processes=options.jobs, verbose=options.verbose)
           ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/build/abinit-7a5fBd/abinit-9.10.4/fkiss/project.py", line 425, in __init__
    import imp
ModuleNotFoundError: No module named 'imp'

@jmbeuken
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Contributor

you've downloaded a tarball for production: the configure is already generated...

you don't need to run ./autogen.sh ( or */*/makemake )

jmb

@ArrayBolt3
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ArrayBolt3 commented Aug 30, 2024 •
edited
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Like I had mentioned, "This is not the only Python 3.12 incompatibility, but it's a rather easily visible one. As Ubuntu 24.04 is not expected to ship with Python 3.11, it would be helpful for abinit to have Python 3.12 support." However it seems that Ubuntu 24.04 managed to ship with abinit in it, so whatever problems were here when I reported this, may not exist anymore. Feel free to close this if abinit supports Python 3.12 now (or if official support for Python 3.12 is not intended).

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