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- Completed Feb. 9, 2022. 3:32 p.m.
- Build took 47 seconds
Error
{# I'd like to use ``build.error|urlize`` here, so we can have nice links. However, this is not possible because we are using `data-bind="text: error"` which means that Knockout.js will use the `.error` attribute to fill the content of this tag dynamically. #} Command /home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/bin/python -m sphinx -T -E -b html -d _build/doctrees -D language=en . _build/html failed: Running Sphinx v4.4.0 loading translations [en]... done making output directory... done [autosummary] generating autosummary for: api/cloptions.rst, api/generated/mrparse.mr_alphafold.rst, api/generated/mrparse.mr_analyse.rst, api/generated/mrparse.mr_annotation.rst, api/generated/mrparse.mr_args.rst, api/generated/mrparse.mr_classify.rst, api/generated/mrparse.mr_deepcoil.rst, api/generated/mrparse.mr_hit.rst, api/generated/mrparse.mr_hkl.rst, api/generated/mrparse.mr_homolog.rst, ..., examples.rst, examples/rst/ccp4cloud_script_phmmer.rst, examples/rst/ccp4i2_script_hhsearch.rst, examples/rst/ccp4i2_script_phmmer.rst, examples/rst/script_hhsearch.rst, examples/rst/script_phmmer.rst, examples/scripts.rst, index.rst, install.rst, references.rst loading intersphinx inventory from https://docs.python.org/3/objects.inv... loading intersphinx inventory from https://docs.scipy.org/doc/numpy/objects.inv... loading intersphinx inventory from https://pandas.pydata.org/objects.inv... loading intersphinx inventory from https://pyjob.readthedocs.io/objects.inv... WARNING: failed to reach any of the inventories with the following issues: intersphinx inventory 'https://pandas.pydata.org/objects.inv' not fetchable due to <class 'requests.exceptions.HTTPError'>: 404 Client Error: Not Found for url: https://pandas.pydata.org/objects.inv intersphinx inventory has moved: https://docs.scipy.org/doc/numpy/objects.inv -> https://numpy.org/doc/stable/objects.inv WARNING: failed to reach any of the inventories with the following issues: intersphinx inventory 'https://pyjob.readthedocs.io/objects.inv' not fetchable due to <class 'requests.exceptions.HTTPError'>: 404 Client Error: Not Found for url: https://pyjob.readthedocs.io/objects.inv Creating file api/generated/mrparse.rst. Creating file api/generated/mrparse.mr_alphafold.rst. Creating file api/generated/mrparse.mr_analyse.rst. Creating file api/generated/mrparse.mr_annotation.rst. Creating file api/generated/mrparse.mr_args.rst. Creating file api/generated/mrparse.mr_classify.rst. Creating file api/generated/mrparse.mr_deepcoil.rst. Creating file api/generated/mrparse.mr_hit.rst. Creating file api/generated/mrparse.mr_hkl.rst. Creating file api/generated/mrparse.mr_homolog.rst. Creating file api/generated/mrparse.mr_jpred.rst. Creating file api/generated/mrparse.mr_log.rst. Creating file api/generated/mrparse.mr_pfam.rst. Creating file api/generated/mrparse.mr_region.rst. Creating file api/generated/mrparse.mr_search_model.rst. Creating file api/generated/mrparse.mr_sequence.rst. Creating file api/generated/mrparse.mr_tmhmm.rst. Creating file api/generated/mrparse.mr_topcons.rst. Creating file api/generated/mrparse.mr_util.rst. Creating file api/generated/mrparse.mr_version.rst. building [mo]: targets for 0 po files that are out of date building [html]: targets for 33 source files that are out of date updating environment: [new config] 33 added, 0 changed, 0 removed reading sources... [ 3%] api/cloptions reading sources... [ 6%] api/generated/mrparse reading sources... [ 9%] api/generated/mrparse.mr_alphafold reading sources... [ 12%] api/generated/mrparse.mr_analyse reading sources... [ 15%] api/generated/mrparse.mr_annotation reading sources... [ 18%] api/generated/mrparse.mr_args reading sources... [ 21%] api/generated/mrparse.mr_classify reading sources... [ 24%] api/generated/mrparse.mr_deepcoil reading sources... [ 27%] api/generated/mrparse.mr_hit reading sources... [ 30%] api/generated/mrparse.mr_hkl reading sources... [ 33%] api/generated/mrparse.mr_homolog reading sources... [ 36%] api/generated/mrparse.mr_jpred reading sources... [ 39%] api/generated/mrparse.mr_log reading sources... [ 42%] api/generated/mrparse.mr_pfam reading sources... [ 45%] api/generated/mrparse.mr_region reading sources... [ 48%] api/generated/mrparse.mr_search_model reading sources... [ 51%] api/generated/mrparse.mr_sequence reading sources... [ 54%] api/generated/mrparse.mr_tmhmm reading sources... [ 57%] api/generated/mrparse.mr_topcons reading sources... [ 60%] api/generated/mrparse.mr_util reading sources... [ 63%] api/generated/mrparse.mr_version reading sources... [ 66%] api/options/mrparse_options Traceback (most recent call last): File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinx/cmd/build.py", line 284, in build_main app.build(args.force_all, filenames) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinx/application.py", line 337, in build self.builder.build_update() File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinx/builders/__init__.py", line 296, in build_update len(to_build)) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinx/builders/__init__.py", line 308, in build updated_docnames = set(self.read()) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinx/builders/__init__.py", line 415, in read self._read_serial(docnames) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinx/builders/__init__.py", line 436, in _read_serial self.read_doc(docname) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinx/builders/__init__.py", line 476, in read_doc doctree = read_doc(self.app, self.env, self.env.doc2path(docname)) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinx/io.py", line 189, in read_doc pub.publish() File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/core.py", line 218, in publish self.settings) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinx/io.py", line 109, in read self.parse() File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/readers/__init__.py", line 78, in parse self.parser.parse(self.input, document) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinx/parsers.py", line 101, in parse self.statemachine.run(inputlines, document, inliner=self.inliner) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/parsers/rst/states.py", line 171, in run input_source=document['source']) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/statemachine.py", line 240, in run context, state, transitions) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/statemachine.py", line 451, in check_line return method(match, context, next_state) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/parsers/rst/states.py", line 2769, in underline self.section(title, source, style, lineno - 1, messages) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/parsers/rst/states.py", line 327, in section self.new_subsection(title, lineno, messages) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/parsers/rst/states.py", line 395, in new_subsection node=section_node, match_titles=True) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/parsers/rst/states.py", line 282, in nested_parse node=node, match_titles=match_titles) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/parsers/rst/states.py", line 196, in run results = StateMachineWS.run(self, input_lines, input_offset) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/statemachine.py", line 240, in run context, state, transitions) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/statemachine.py", line 451, in check_line return method(match, context, next_state) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/parsers/rst/states.py", line 2342, in explicit_markup nodelist, blank_finish = self.explicit_construct(match) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/parsers/rst/states.py", line 2354, in explicit_construct return method(self, expmatch) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/parsers/rst/states.py", line 2097, in directive directive_class, match, type_name, option_presets) File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/docutils/parsers/rst/states.py", line 2146, in run_directive result = directive_instance.run() File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinxarg/ext.py", line 508, in run parser = func() TypeError: mrparse_argparse() missing 1 required positional argument: 'parser' Exception occurred: File "/home/docs/checkouts/readthedocs.org/user_builds/mrparse/envs/stable/lib/python3.7/site-packages/sphinxarg/ext.py", line 508, in run parser = func() TypeError: mrparse_argparse() missing 1 required positional argument: 'parser' The full traceback has been saved in /tmp/sphinx-err-gpbt0x1q.log, if you want to report the issue to the developers. Please also report this if it was a user error, so that a better error message can be provided next time. A bug report can be filed in the tracker at <https://github.com/sphinx-doc/sphinx/issues>. Thanks!