A problem after I update MOOSE (including conda and MOOSE repository)

[Wang-Yihu]

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Question

My error is like this:
#27575

(base) wangyihu@wangyihu-virtual-machine:~/projects/lianxi_xinxinde$ conda activate moose
(moose) wangyihu@wangyihu-virtual-machine:~/projects/lianxi_xinxinde$ make -j4
fatal: ambiguous argument 'HEAD': unknown revision or path not in the working tree.
Use '--' to separate paths from revisions, like this:
'git <command> [<revision>...] -- [<file>...]'
Traceback (most recent call last):
  File "/home/wangyihu/projects/moose/scripts/versioner.py", line 936, in git_rev_parse
    return subprocess.check_output(cmd, text=True, cwd=directory).rstrip()
           ~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  File "/home/wangyihu/miniforge/envs/moose/lib/python3.13/subprocess.py", line 472, in check_output
    return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
           ~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
               **kwargs).stdout
               ^^^^^^^^^
  File "/home/wangyihu/miniforge/envs/moose/lib/python3.13/subprocess.py", line 577, in run
    raise CalledProcessError(retcode, process.args,
                             output=stdout, stderr=stderr)
subprocess.CalledProcessError: Command '['git', 'rev-parse', 'HEAD']' returned non-zero exit status 128.

The above exception was the direct cause of the following exception:

Traceback (most recent call last):
  File "/home/wangyihu/projects/moose/framework/../scripts/premake.py", line 258, in <module>
    PreMake().check()
    ~~~~~~~^^
  File "/home/wangyihu/projects/moose/framework/../scripts/premake.py", line 27, in __init__
    self.packages = Versioner().get_packages('HEAD')
                    ~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^
  File "/home/wangyihu/projects/moose/scripts/versioner.py", line 521, in get_packages
    package = {'name': Versioner.get_app_info().name if name == 'app' else name,
                       ~~~~~~~~~~~~~~~~~~~~~~^^
  File "/home/wangyihu/projects/moose/scripts/versioner.py", line 923, in get_app_info
    git_hash = str(Versioner.git_rev_parse('HEAD', os.getcwd()))
                   ~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^
  File "/home/wangyihu/projects/moose/scripts/versioner.py", line 939, in git_rev_parse
    raise ValueError(f'Reference {ref} is not valid in repo {directory}') from e
ValueError: Reference HEAD is not valid in repo /home/wangyihu/projects/lianxi_xinxinde
make: [/home/wangyihu/projects/moose/framework/moose.mk:493: prebuild] Error 1 (ignored)
Checking if header needs updating: /home/wangyihu/projects/moose/framework/include/base/MooseRevision.h...
ln: failed to create symbolic link '/home/wangyihu/projects/lianxi_xinxinde/build/header_symlinks': No such file or directory
make: *** [/home/wangyihu/projects/moose/framework/moose.mk:452: /home/wangyihu/projects/moose/framework/include/base/MooseRevision.h] Error 1
make: *** Waiting for unfinished jobs....

I try

  git config --global user.email "you@example.com"
  git config --global user.name "Your Name"

But it does not work...
Do I miss something?

[GiudGiud]

Hello

it looks like the git repository is broken. Can you try in a freshly cloned folder?

[Wang-Yihu]

I do not know what's going on. My VM has 16 GB memory, it cannot be memory problem.
I unistall moose conda, delete projects document. and install moose conda, git moose.
The same problem will be back again

[GiudGiud]

16GB ram?
16gb is not enough disk space for MOOSE

[Wang-Yihu]

That's impossible. I have used this VM for a year for MOOSE, it did not appear this problem before...
Today I unistall old version moose conda, delete old version projects document. and install new version moose conda, git new version moose.
And it cannot work now?

[Wang-Yihu]

do the header_symlinks folders in moose and your app exist? Are the linux permissions set properly in both folders (you never used sudo there? you have read access to all files on this account)

Oh! I find build/header_symlinks does not exist in my app! Now I mkdir build/header_symlinks in my app, and make. It will work...

I want to now the reason. It seems that I do not manually mkdir these two folders in the previous version... In the previous MOOSE version. When I create a new app folder, the build/header_symlinks does not exist in it. When I make in the app folder, build/header_symlinks will be created automatically by makefile...

[GiudGiud]

Must be a recent change to the Makefile.
I ll keep an eye out if others hit the issue

[Wang-Yihu]

Thank you sir!

[sapitts]

I hit this missing build/header_symlinks error in malamute just now, too. have not yet tried manually creating the directory, but will now

[GiudGiud]

what platform @sapitts ? macos or wsl?