fix: pip install failed with message, LookupError: setuptools-scm was unable to detect version by adRn-s · Pull Request #267 · maxplanck-ie/dissectBCL

adRn-s · 2026-06-12T14:06:55Z

fix: coerce lane type to string in sampleSheet construction for lanesplitted illumina flow cells to accomodate '1+2' case.

setuptools will be writing __version__ inside src/dissectBCL/_version.py from now on. this way pip install . works alright (note that release 1.0.0 is not installable as it is)

…s unable to detect version

WardDeb · 2026-06-13T04:29:02Z

do you have git in your PATH ?
I'm not following what this actually fixes

adRn-s · 2026-06-16T11:16:14Z

do you have git in your PATH ? I'm not following what this actually fixes

I just reproduced this locally, on my laptop (with git in PATH.)

This is to fix the release 1.0.0 which should actually be disabled once we release a patch.

I will paste the log for this error that was fixed with 2 lines in pyproject toml (so that setuptools find version number.)

❯ wget https://github.com/maxplanck-ie/dissectBCL/archive/refs/tags/v1.0.0.tar.gz
HTTP response 302  [https://github.com/maxplanck-ie/dissectBCL/archive/refs/tags/v1.0.0.tar.gz]
Enqueue https://codeload.github.com/maxplanck-ie/dissectBCL/tar.gz/refs/tags/v1.0.0
Saving 'v1.0.0.tar.gz'
HTTP response 200  [https://codeload.github.com/maxplanck-ie/dissectBCL/tar.gz/refs/tags/v1.0.0]
v1.0.0.tar.gz        100% [==================================================================================================================================>]   64.22K    --.-KB/s
                          [Files: 1  Bytes: 64.22K [150.05KB/s] Redirects: 1  Todo: 0  Errors: 0                                                              ]

❯ tar xvf v1.0.0.tar.gz
dissectBCL-1.0.0/
[...] output truncated manually [...]
dissectBCL-1.0.0/tests/todo.md

❯ cd dissectBCL-1.0.0/

❯ conda env create -f env.yml --name dissectBCL
Retrieving notices: done
Channels:
 - conda-forge
 - bioconda
 - mpi-ie
Platform: linux-64
Collecting package metadata (repodata.json): done
Solving environment: done

Downloading and Extracting Packages:
                                                                                                                                                                                     
Preparing transaction: done                                                                                                                                                          
Verifying transaction: done                                                                                                                                                          
Executing transaction: done                                                                                                                                                          
#                                                                                                                                                                                    
# To activate this environment, use                                                                                                                                                  
#                                                                                                                                                                                    
#     $ conda activate dissectBCL                                                                                                                                                    
#                                                                                                                                                                                    
# To deactivate an active environment, use                                                                                                                                           
#                                                                                                                                                                                    
#     $ conda deactivate                                                                                                                                                             
                                                                                                                                                                                     
❯ conda activate dissectBCL

❯ pip install .
Processing ./.
  Installing build dependencies ... done
  Getting requirements to build wheel ... error
  error: subprocess-exited-with-error
  
  × Getting requirements to build wheel did not run successfully.
  │ exit code: 1
  ╰─> [67 lines of output]
      Traceback (most recent call last):
        File "/home/anzo/data/conda/envs/dissectBCL/lib/python3.13/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 389, in <module>
          main()
          ~~~~^^
        File "/home/anzo/data/conda/envs/dissectBCL/lib/python3.13/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 373, in main
          json_out["return_val"] = hook(**hook_input["kwargs"])
                                   ~~~~^^^^^^^^^^^^^^^^^^^^^^^^
        File "/home/anzo/data/conda/envs/dissectBCL/lib/python3.13/site-packages/pip/_vendor/pyproject_hooks/_in_process/_in_process.py", line 143, in get_requires_for_build_wheel
          return hook(config_settings)
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools/build_meta.py", line 333, in get_requires_for_build_wheel
          return self._get_build_requires(config_settings, requirements=[])
                 ~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools/build_meta.py", line 301, in _get_build_requires
          self.run_setup()
          ~~~~~~~~~~~~~~^^
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools/build_meta.py", line 317, in run_setup
          exec(code, locals())
          ~~~~^^^^^^^^^^^^^^^^
        File "<string>", line 1, in <module>
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools/__init__.py", line 117, in setup
          return distutils.core.setup(**attrs)  # type: ignore[return-value]
                 ~~~~~~~~~~~~~~~~~~~~^^^^^^^^^
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools/_distutils/core.py", line 148, in setup
          _setup_distribution = dist = klass(attrs)
                                       ~~~~~^^^^^^^
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools/dist.py", line 321, in __init__
          _Distribution.__init__(self, dist_attrs)
          ~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools/_distutils/dist.py", line 307, in __init__
          self.finalize_options()
          ~~~~~~~~~~~~~~~~~~~~~^^
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools/dist.py", line 790, in finalize_options
          ep(self)
          ~~^^^^^^
        File "/home/anzo/data/conda/envs/dissectBCL/lib/python3.13/contextlib.py", line 85, in inner
          return func(*args, **kwds)
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools_scm/_integration/setuptools.py", line 192, in infer_version
          _infer_version_impl(
          ~~~~~~~~~~~~~~~~~~~^
              dist,
              ^^^^^
          ...<3 lines>...
              _get_version_inference_config=_get_version_inference_config,
              ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
          )
          ^
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools_scm/_integration/setuptools.py", line 225, in _infer_version_impl
          result.apply(dist)
          ~~~~~~~~~~~~^^^^^^
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools_scm/_integration/version_inference.py", line 123, in apply
          data = infer_version_with_config(
              self.dist_name,
              self.pyproject_data,  # type: ignore[arg-type]
              self.overrides,
          )
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/setuptools_scm/_integration/version_inference.py", line 67, in infer_version_with_config
          _version_missing(config)
          ~~~~~~~~~~~~~~~~^^^^^^^^
        File "/tmp/pip-build-env-ca8d3s2a/overlay/lib/python3.13/site-packages/vcs_versioning/_get_version_impl.py", line 207, in _version_missing
          raise LookupError(error_msg)
      LookupError: setuptools-scm was unable to detect version for /var/mnt/data/bioinfo/dissectBCL-1.0.0.
      
      Make sure you're either building from a fully intact git repository or PyPI tarballs. Most other sources (such as GitHub's tarballs, a git checkout without the .git folder) don't contain the necessary metadata and will not work.
      
      For example, if you're using pip, instead of https://github.com/user/proj/archive/master.zip use git+https://github.com/user/proj.git#egg=proj
      
      Alternatively, set the version with the environment variable SETUPTOOLS_SCM_PRETEND_VERSION_FOR_${NORMALIZED_DIST_NAME} as described in https://setuptools-scm.readthedocs.io/en/latest/config/
      [end of output]
  
  note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed to build 'file:///var/mnt/data/bioinfo/dissectBCL-1.0.0' when getting requirements to build wheel

PS. I am fixing the CI jobs now. And @NavandarM has a fix for an error that we encountered today in production.

Co-authored-by: NavandarM <navandar@ie-freiburg.mpg.de> Co-authored-by: Pipeline Project User <pipegrp@longus2.ie-freiburg.mpg.de>

WardDeb · 2026-06-16T12:35:38Z

Thx for clarifying. I guess this is specific to getting source code tarball:

Make sure you're either building from a fully intact git repository or PyPI tarballs. Most other sources (such as GitHub's tarballs, a git checkout without the .git folder) don't contain the necessary metadata and will not work.

adRn-s · 2026-06-16T13:34:37Z

Thx for clarifying. I guess this is specific to getting source code tarball:

Make sure you're either building from a fully intact git repository or PyPI tarballs. Most other sources (such as GitHub's tarballs, a git checkout without the .git folder) don't contain the necessary metadata and will not work.

Oh no, I only went with the source tarball after it failed, with the same error, installing from /home/pipegrp/repos/dissectBCL (clean repo, checkout to 1.0.0 or even main ATM)

adRn-s · 2026-06-16T14:12:27Z

Btw, the same installation issues are happening with BRB. Same error message, so I added a new branch install_fix at that repo too.

WardDeb · 2026-06-16T17:08:55Z

I cannot reproduce this, not via pip, not via uv, not via pixi..
Anyhow I also don't think this can harm, as long as editable install version commit hashes are propagated in the version itself.

WardDeb · 2026-06-16T17:12:54Z

Is all of this overhead really needed ?

WardDeb · 2026-06-16T17:14:57Z

Seems good to me

WardDeb · 2026-06-16T17:15:33Z

This file can go to gitignore then I guess ? No use in keeping these dev tags

adRn-s · 2026-06-17T13:27:05Z

My issue was fixed by conda install git before pip install . so I'm closing this. I am having difficulties to understand what was wrong... seems like a me-thing, combined with something else (bug upstream, on setuptools-scm maybe??)

fix!: pip install failed with message, LookupError: setuptools-scm wa…

2e7a24d

…s unable to detect version

Mn (#268)

b6e4e6e

Co-authored-by: NavandarM <navandar@ie-freiburg.mpg.de> Co-authored-by: Pipeline Project User <pipegrp@longus2.ie-freiburg.mpg.de>

WardDeb changed the title ~~fix!: pip install failed with message, LookupError: setuptools-scm was unable to detect version~~ fix: pip install failed with message, LookupError: setuptools-scm was unable to detect version Jun 16, 2026

adRn-s added 2 commits June 16, 2026 15:49

workflow seems runable locally via act now.

a84c5f9

fixed issue that was detected via ruff lint

8f2cdad

adRn-s requested review from NavandarM and WardDeb June 16, 2026 14:04

adRn-s added 2 commits June 16, 2026 16:14

robustness with new flow

1a0ce09

fix stale __version__

2705016

Copilot started work on behalf of adRn-s June 16, 2026 14:41 View session

Fix flaky version-file CI check in pytest workflow

8f2ebe6

Copilot finished work on behalf of adRn-s June 16, 2026 14:48

WardDeb reviewed Jun 16, 2026

View reviewed changes

adRn-s closed this Jun 17, 2026

adRn-s mentioned this pull request Jun 17, 2026

fix: pip install failed with message, LookupError: setuptools-scm was unable to detect version maxplanck-ie/BigRedButton#122

Closed

adRn-s deleted the install_fix branch June 19, 2026 12:51

Copilot AI mentioned this pull request Jun 19, 2026

docs: addressing #267 in some way at least. #272

Merged

adRn-s added a commit that referenced this pull request Jun 22, 2026

docs: addressing #267 in some way at least. (#272)

3aaec9e

mankeebot mentioned this pull request Jun 22, 2026

chore(main): release 1.0.2 #273

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fix: pip install failed with message, LookupError: setuptools-scm was unable to detect version#267

fix: pip install failed with message, LookupError: setuptools-scm was unable to detect version#267
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