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fix: [#256] cancer and multiassay support pull_sheets.py #332

fix: [#256] cancer and multiassay support pull_sheets.py

fix: [#256] cancer and multiassay support pull_sheets.py #332

Re-run triggered February 13, 2025 14:28
Status Failure
Total duration 51s
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main.yml

on: pull_request
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1 error and 4 warnings
linting (3.12)
The process '/usr/share/miniconda/condabin/conda' failed with exit code 1
linting (3.12)
'nodefaults' channel detected: will remove 'defaults' if added implicitly. In the future, 'nodefaults' to remove 'defaults' won't be supported. Please set 'conda-remove-defaults' = 'true' in setup-miniconda to remove this warning.
linting (3.12)
/usr/share/miniconda/lib/python3.12/site-packages/conda/base/context.py:202: FutureWarning: Adding 'defaults' to channel list implicitly is deprecated and will be removed in 25.3. To remove this warning, please choose a default channel explicitly with conda's regular configuration system, e.g. by adding 'defaults' to the list of channels: conda config --add channels defaults For more information see https://docs.conda.io/projects/conda/en/stable/user-guide/configuration/use-condarc.html deprecated.topic(
linting (3.12)
# >>>>>>>>>>>>>>>>>>>>>> ERROR REPORT <<<<<<<<<<<<<<<<<<<<<< Traceback (most recent call last): File "/usr/share/miniconda/lib/python3.12/site-packages/conda/exception_handler.py", line 18, in __call__ return func(*args, **kwargs) ^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda/cli/main.py", line 61, in main_subshell exit_code = do_call(args, parser) ^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda/cli/conda_argparse.py", line 205, in do_call result = getattr(module, func_name)(args, parser) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda/notices/core.py", line 132, in wrapper return func(*args, **kwargs) ^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda/cli/main_env_update.py", line 161, in execute result[installer_type] = installer.install(prefix, specs, args, env) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda/env/installers/conda.py", line 51, in install unlink_link_transaction = solver.solve_for_transaction( ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda/core/solve.py", line 153, in solve_for_transaction unlink_precs, link_precs = self.solve_for_diff( ^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda/core/solve.py", line 222, in solve_for_diff final_precs = self.solve_final_state( ^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda_libmamba_solver/solver.py", line 181, in solve_final_state out_state = self._solving_loop(in_state, out_state, index) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda/common/io.py", line 87, in decorated return f(*args, **kwds) ^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda_libmamba_solver/solver.py", line 307, in _solving_loop solved, outcome = self._solve_attempt(in_state, out_state, index, attempt=attempt) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda_libmamba_solver/solver.py", line 356, in _solve_attempt jobs = self._specs_to_request_jobs(in_state, out_state) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda_libmamba_solver/solver.py", line 409, in _specs_to_request_jobs libmamba_spec = self._conda_spec_to_libmamba_spec(conda_spec) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ File "/usr/share/miniconda/lib/python3.12/site-packages/conda_libmamba_solver/solver.py", line 890, in _conda_spec_to_libmamba_spec return LibmambaMatchSpec.parse(str(spec)) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ libmambapy.bindings.specs.ParseError: Error parsing version "'3.12". Version contains invalid characters in '3.12. `$ /usr/share/miniconda/condabin/conda env update --name test --file /home/runner/work/cubi-tk/cubi-tk/setup-miniconda-patched-environment.yaml` environment variables: CIO_TEST=<not set> CONDA=/usr/share/miniconda CONDA_ROOT=/usr/share/miniconda CURL_CA_BUNDLE=<not set> DEPLOYMENT_BASEPATH=/opt/runner GITHUB_EVENT_PATH=/home/runner/work/_temp/_github_workflow/event.json GITHUB_PATH=/home/runner/work/_temp/_runner_file_commands/add_path_1ed84017-90a6- 4594-86fc-457ab2dae69c LD_PRELOAD=<not set>
linting (3.12)
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