nf-core lint ,--./,-. ___ __ __ __ ___ /,-._.--~\ |\ | |__ __ / ` / \ |__) |__ } { | \| | \__, \__/ | \ |___ \`-._,-`-, `._,._,' nf-core/tools version 2.14.1 - https://nf-co.re ╭─────────────────────────────── Traceback (most recent call last) ────────────────────────────────╮ │ /home/ubuntu/Projects/VENVS/nextflow-env/bin/nf-core:8 in │ │ │ │ 5 from nf_core.__main__ import run_nf_core │ │ 6 if __name__ == '__main__': │ │ 7 │ sys.argv[0] = re.sub(r'(-script\.pyw|\.exe)?$', '', sys.argv[0]) │ │ ❱ 8 │ sys.exit(run_nf_core()) │ │ 9 │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/nf_core/__main__.py:150 in │ │ run_nf_core │ │ │ │ 147 │ │ │ log.debug(f"Could not check latest version: {e}") │ │ 148 │ │ stderr.print("\n") │ │ 149 │ # Launch the click cli │ │ ❱ 150 │ nf_core_cli(auto_envvar_prefix="NFCORE") │ │ 151 │ │ 152 │ │ 153 @tui() │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/rich_click/rich_command.py │ │ :367 in __call__ │ │ │ │ 364 │ │ # Include this here because I run into a false warning │ │ 365 │ │ # in the PyCharm IDE otherwise; for some reason PyCharm doesn't │ │ 366 │ │ # seem to think RichGroups are callable. (No issues with Mypy, though.) │ │ ❱ 367 │ │ return super().__call__(*args, **kwargs) │ │ 368 │ │ 369 │ │ 370 class RichCommandCollection(CommandCollection, RichGroup): │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/click/core.py:1157 in │ │ __call__ │ │ │ │ 1154 │ │ │ 1155 │ def __call__(self, *args: t.Any, **kwargs: t.Any) -> t.Any: │ │ 1156 │ │ """Alias for :meth:`main`.""" │ │ ❱ 1157 │ │ return self.main(*args, **kwargs) │ │ 1158 │ │ 1159 │ │ 1160 class Command(BaseCommand): │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/rich_click/rich_command.py │ │ :152 in main │ │ │ │ 149 │ │ try: │ │ 150 │ │ │ try: │ │ 151 │ │ │ │ with self.make_context(prog_name, args, **extra) as ctx: │ │ ❱ 152 │ │ │ │ │ rv = self.invoke(ctx) │ │ 153 │ │ │ │ │ if not standalone_mode: │ │ 154 │ │ │ │ │ │ return rv │ │ 155 │ │ │ │ │ # it's not safe to `ctx.exit(rv)` here! │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/click/core.py:1688 in │ │ invoke │ │ │ │ 1685 │ │ │ │ super().invoke(ctx) │ │ 1686 │ │ │ │ sub_ctx = cmd.make_context(cmd_name, args, parent=ctx) │ │ 1687 │ │ │ │ with sub_ctx: │ │ ❱ 1688 │ │ │ │ │ return _process_result(sub_ctx.command.invoke(sub_ctx)) │ │ 1689 │ │ │ │ 1690 │ │ # In chain mode we create the contexts step by step, but after the │ │ 1691 │ │ # base command has been invoked. Because at that point we do not │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/click/core.py:1434 in │ │ invoke │ │ │ │ 1431 │ │ │ echo(style(message, fg="red"), err=True) │ │ 1432 │ │ │ │ 1433 │ │ if self.callback is not None: │ │ ❱ 1434 │ │ │ return ctx.invoke(self.callback, **ctx.params) │ │ 1435 │ │ │ 1436 │ def shell_complete(self, ctx: Context, incomplete: str) -> t.List["CompletionItem"]: │ │ 1437 │ │ """Return a list of completions for the incomplete value. Looks │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/click/core.py:783 in │ │ invoke │ │ │ │ 780 │ │ │ │ 781 │ │ with augment_usage_errors(__self): │ │ 782 │ │ │ with ctx: │ │ ❱ 783 │ │ │ │ return __callback(*args, **kwargs) │ │ 784 │ │ │ 785 │ def forward( │ │ 786 │ │ __self, __cmd: "Command", *args: t.Any, **kwargs: t.Any # noqa: B902 │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/click/decorators.py:33 in │ │ new_func │ │ │ │ 30 │ """ │ │ 31 │ │ │ 32 │ def new_func(*args: "P.args", **kwargs: "P.kwargs") -> "R": │ │ ❱ 33 │ │ return f(get_current_context(), *args, **kwargs) │ │ 34 │ │ │ 35 │ return update_wrapper(new_func, f) │ │ 36 │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/nf_core/__main__.py:635 in │ │ lint │ │ │ │ 632 │ │ │ 633 │ # Run the lint tests! │ │ 634 │ try: │ │ ❱ 635 │ │ lint_obj, module_lint_obj, subworkflow_lint_obj = run_linting( │ │ 636 │ │ │ dir, │ │ 637 │ │ │ release, │ │ 638 │ │ │ fix, │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/nf_core/lint/__init__.py:5 │ │ 62 in run_linting │ │ │ │ 559 │ │ │ 560 │ # Load the various pipeline configs │ │ 561 │ lint_obj._load_lint_config() │ │ ❱ 562 │ lint_obj._load_pipeline_config() │ │ 563 │ lint_obj._list_files() │ │ 564 │ │ │ 565 │ # Create the modules lint object │ │ │ │ /home/ubuntu/Projects/VENVS/nextflow-env/lib/python3.10/site-packages/nf_core/utils.py:183 in │ │ _load_pipeline_config │ │ │ │ 180 │ │ """ │ │ 181 │ │ self.nf_config = fetch_wf_config(self.wf_path) │ │ 182 │ │ │ │ ❱ 183 │ │ self.pipeline_prefix, self.pipeline_name = self.nf_config.get("manifest.name", " │ │ 184 │ │ │ │ 185 │ │ nextflow_version_match = re.search(r"[0-9\.]+(-edge)?", self.nf_config.get("mani │ │ 186 │ │ if nextflow_version_match: │ ╰──────────────────────────────────────────────────────────────────────────────────────────────────╯ ValueError: not enough values to unpack (expected 2, got 1)