Using task.process instead of "${task.process}" in eval crashes the linting #3889
Description
Description of the bug
We should be able to use val(task.process) in a topic eval, rather than "${task.process}".
e.g.
tuple val(task.process), val("fgbio"), eval("fgbio --version 2>&1 | grep -oE '[0-9]+(\\.[0-9]+)+'"), topic: versions, emit: versions_fgbio
This works fine (Nextflow 25.10.0) in practice, but this seems to crash the linting:
╭───────────────────── Traceback (most recent call last) ──────────────────────╮
│ /opt/hostedtoolcache/Python/3.14.0/x64/bin/nf-core:7 in <module> │
│ │
│ 4 if __name__ == '__main__': │
│ 5 │ if sys.argv[0].endswith('.exe'): │
│ 6 │ │ sys.argv[0] = sys.argv[0][:-4] │
│ ❱ 7 │ sys.exit(run_nf_core()) │
│ 8 │
│ │
│ /opt/hostedtoolcache/Python/3.14.0/x64/lib/python3.14/site-packages/nf_core/ │
│ __main__.py:130 in run_nf_core │
│ │
│ 127 │ │ │ log.debug(f"Could not check latest version: {e}") │
│ 128 │ │ stderr.print("\n") │
│ 129 │ # Launch the click cli │
│ ❱ 130 │ nf_core_cli(auto_envvar_prefix="NFCORE") │
│ 131 │
│ 132 │
│ 133 @tui(command="interface", help="Launch the nf-core interface") │
│ │
│ /opt/hostedtoolcache/Python/3.14.0/x64/lib/python3.14/site-packages/rich_cli │
│ ck/rich_command.py:402 in __call__ │
│ │
│ 399 │ │ # Include this here because I run into a false warning │
│ 400 │ │ # in the PyCharm IDE otherwise; for some reason PyCharm doesn' │
│ 401 │ │ # seem to think RichGroups are callable. (No issues with Mypy, │
│ ❱ 402 │ │ return super().__call__(*args, **kwargs) │
│ 403 │ │
│ 404 │ @overload │
│ 405 │ def command(self, __func: Callable[..., Any]) -> RichCommand: ... │
│ │
│ /opt/hostedtoolcache/Python/3.14.0/x64/lib/python3.14/site-packages/click/co │
│ re.py:1462 in __call__ │
│ │
│ 170 │ │ # Lint nf-core modules │
│ 171 │ │ if not local and len(remote_modules) > 0: │
│ ❱ 172 │ │ │ self.lint_modules(remote_modules, registry=registry, local │
│ 173 │ │ │
│ 174 │ │ if print_results: │
│ 175 │ │ │ self._print_results(show_passed=show_passed, sort_by=sort_ │
│ │
│ /opt/hostedtoolcache/Python/3.14.0/x64/lib/python3.14/site-packages/nf_core/ │
│ modules/lint/__init__.py:208 in lint_modules │
│ │
│ 205 │ │ │ │
│ 206 │ │ │ for mod in modules: │
│ 207 │ │ │ │ progress_bar.update(lint_progress, advance=1, test_nam │
│ ❱ 208 │ │ │ │ self.lint_module(mod, progress_bar, local=local, fix_v │
│ 209 │ │
│ 210 │ def lint_module( │
│ 211 │ │ self, │
│ │
│ /opt/hostedtoolcache/Python/3.14.0/x64/lib/python3.14/site-packages/nf_core/ │
│ modules/lint/__init__.py:287 in lint_module │
│ │
│ 284 │ │ │ else: │
│ 285 │ │ │ │ self.failed += warned │
│ 286 │ │ │ │
│ ❱ 287 │ │ │ self.failed += [LintResult(mod, *m) for m in mod.failed] │
│ 288 │ │
│ 289 │ def update_meta_yml_file(self, mod): │
│ 290 │ │ """ │
╰──────────────────────────────────────────────────────────────────────────────╯
TypeError: LintResult.__init__() missing 1 required positional argument:
'file_path'
Command used and terminal output
System information
No response