符合nature论文学术表达和科研绘图的Skill
This report summarizes scanner evidence for Yuan1z0825/nature-skills, a Python project with 47,181 GitHub stars. SynthScan examined 98,741 lines of code across 717 source files, recording 937 pattern matches distributed across 20 syntactic categories. The legacy adjusted pattern signal is 12.8 (Moderate pattern signal); it is not an authorship estimate.
Use the findings to ask whether maintainers can explain intent, verify dependencies, simplify unnecessary scaffolding, and focus review effort. Risk Payload v1 adds ownership, supply-chain, over-engineering, and review-effort vectors when available. These are prompts for human verification, not probabilities, security findings, or measured maintenance costs.
Use each vector to guide manual verification of the underlying findings.
Can maintainers explain intent, assumptions, and trade-offs? 609 finding(s).
Are imports declared and package/API names verified? 175 finding(s).
Are wrappers, guards, and repeated structures necessary? 641 finding(s).
Which changes need focused human review? 937 finding(s).
This chart tracks the legacy adjusted pattern score across scan runs. Changes can reflect source changes, scan coverage, or detector/scoring versions; they do not measure AI adoption or prove that a team refactored code. Compare runs only when their scoring versions are compatible. The dashed line tracks the raw pattern-hit count.
Groups findings by configured severity weight. Severity is not a confidence estimate, security rating, or proof that a package is missing. Verify imports against the project's manifests and inspect each finding in its local design context.
This horizontal bar chart shows where configured pattern scores accumulate across directories. Treat the bars as locations to inspect, not as evidence of authorship or code quality. Use the file-level findings to decide whether a directory needs a focused ownership, dependency, complexity, or review check.
The scanner identified 937 distinct pattern matches across 20 syntactic categories. Each entry below represents a discrete location in the source code where the engine recorded a detector match to inspect in context. Expand any category row to inspect the individual file paths, line numbers, code snippets, and the lexical context (CODE, COMMENT, or STRING) in which each match was detected.
Reading the findings table: The Severity column indicates the configured finding weight (CRITICAL / HIGH / MEDIUM / LOW). The Context column identifies whether the match occurred inside executable code, an inline comment, or a string literal — legacy comment-context matches receive a ×1.5 score weight. The ⚡ bolt icon marks clustered matches: three or more patterns within a 10-line window, each receiving an additional ×1.5 density multiplier under the legacy scoring model.
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW⚡ | tests/test_generate_star_history.py | 18 | def test_empty_repository_has_no_daily_points(self): | CODE |
| LOW⚡ | tests/test_generate_star_history.py | 21 | def test_missing_timestamp_does_not_produce_a_chart(self): | CODE |
| LOW⚡ | tests/test_generate_star_history.py | 26 | def test_invalid_timestamp_does_not_produce_a_chart(self): | CODE |
| LOW⚡ | tests/test_generate_star_history.py | 31 | def test_valid_timestamps_are_sorted_and_accumulated(self): | CODE |
| LOW⚡ | tests/test_generate_star_history.py | 46 | def test_valid_records_allow_star_count_changes_during_fetch(self): | CODE |
| LOW⚡ | tests/test_generate_star_history.py | 53 | def test_empty_svg_is_valid_for_zero_stars(self): | CODE |
| LOW⚡ | tests/test_generate_star_history.py | 59 | def test_zero_star_fetch_skips_stargazer_request(self): | CODE |
| LOW⚡ | tests/test_generate_star_history.py | 64 | def test_unusable_api_response_keeps_existing_chart(self): | CODE |
| LOW | tests/test_generate_star_history.py | 82 | def test_small_chart_has_integer_y_ticks(self): | CODE |
| LOW | scripts/validate-workflows.py | 50 | def local_scripts_from_run_steps(workflow: dict[str, Any]) -> set[str]: | CODE |
| LOW | scripts/validate-workflows.py | 71 | def external_action_references(workflow: dict[str, Any]) -> set[str]: | CODE |
| LOW | scripts/generate-star-history.py | 60 | def is_transient_graphql_error(errors: object) -> bool: | CODE |
| LOW | scripts/generate-star-history.py | 451 | def update_daily_incrementally( | CODE |
| LOW | scripts/generate-star-history.py | 706 | def remove_old_versioned_outputs(output: pathlib.Path, keep: pathlib.Path) -> None: | STRING |
| LOW | scripts/generate-star-history.py | 717 | def update_readme_cache_buster( | STRING |
| LOW | scripts/validate-repository.py | 59 | def validate_structured_configs(skills: list[pathlib.Path]) -> list[ValidationError]: | CODE |
| LOW | scripts/validate-repository.py | 76 | def validate_reference_navigation(skills: list[pathlib.Path]) -> list[ValidationError]: | CODE |
| LOW | scripts/tests/test_validate_skill_metadata.py | 30 | def test_supported_metadata_is_valid(self) -> None: | CODE |
| LOW | scripts/tests/test_validate_skill_metadata.py | 45 | def test_legacy_version_and_author_are_rejected(self) -> None: | CODE |
| LOW | scripts/tests/test_validate_skill_metadata.py | 58 | def test_required_fields_must_be_non_empty(self) -> None: | CODE |
| LOW | scripts/tests/test_validate_skill_metadata.py | 71 | def test_frontmatter_requires_a_closing_fence(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_validate_skill_metadata.py | 96 | def test_complete_quoted_interface_is_valid(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_validate_skill_metadata.py | 106 | def test_default_prompt_must_name_the_skill(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_validate_skill_metadata.py | 116 | def test_interface_strings_must_be_quoted(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_validate_skill_metadata.py | 126 | def test_support_only_skill_must_disable_implicit_invocation(self) -> None: | CODE |
| LOW | scripts/tests/test_validate_skill_metadata.py | 153 | def test_support_only_skill_accepts_explicit_disablement(self) -> None: | STRING |
| LOW⚡ | scripts/tests/test_validate_workflows.py | 37 | def test_mutable_version_tag_is_rejected(self) -> None: | STRING |
| LOW⚡ | scripts/tests/test_validate_workflows.py | 41 | def test_full_commit_sha_is_accepted(self) -> None: | STRING |
| LOW⚡ | scripts/tests/test_validate_workflows.py | 47 | def test_local_action_is_accepted(self) -> None: | STRING |
| LOW | scripts/tests/test_nature_abstract_guidance.py | 20 | def test_guidance_is_corpus_derived_not_official_policy(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_abstract_guidance.py | 29 | def test_guidance_centres_the_discovery_evidence_chain(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_abstract_guidance.py | 43 | def test_numeric_and_payoff_rules_are_selective(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_abstract_guidance.py | 56 | def test_writing_and_polishing_routes_load_shared_guidance(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_abstract_guidance.py | 71 | def test_section_fragments_do_not_require_decorative_numbers(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_social_science.py | 34 | def test_skill_frontmatter_is_clean(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_social_science.py | 43 | def test_manifest_references_exist_on_disk(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_nature_social_science.py | 55 | def test_all_reference_files_present(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_nature_social_science.py | 61 | def test_iron_rules_and_fabrication_ban_are_stated(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_nature_social_science.py | 70 | def test_status_systems_are_not_collapsed(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_social_science.py | 85 | def test_expression_reference_enforces_claim_ceiling(self) -> None: | CODE |
| LOW | …ripts/tests/test_nature_results_discussion_guidance.py | 20 | def test_guidance_is_corpus_derived_not_official_policy(self) -> None: | CODE |
| LOW | …ripts/tests/test_nature_results_discussion_guidance.py | 30 | def test_results_claim_escalation_and_local_interpretation_are_operational(self) -> None: | CODE |
| LOW | …ripts/tests/test_nature_results_discussion_guidance.py | 44 | def test_mixed_nature_corpus_supports_evidence_chain_archetypes(self) -> None: | CODE |
| LOW | …ripts/tests/test_nature_results_discussion_guidance.py | 60 | def test_discussion_synthesizes_without_redemonstrating(self) -> None: | CODE |
| LOW | …ripts/tests/test_nature_results_discussion_guidance.py | 75 | def test_writing_and_polishing_routes_load_shared_guidance(self) -> None: | CODE |
| LOW | …ripts/tests/test_nature_results_discussion_guidance.py | 90 | def test_routes_cover_all_nature_portfolio_targets(self) -> None: | CODE |
| LOW | …ripts/tests/test_nature_results_discussion_guidance.py | 107 | def test_old_facts_only_split_is_not_enforced(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_figure_multipanel_evidence.py | 21 | def test_guidance_is_corpus_derived_not_official_policy(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_figure_multipanel_evidence.py | 32 | def test_one_figure_claim_and_role_diversity_are_operational(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_figure_multipanel_evidence.py | 46 | def test_placement_and_cross_figure_claim_escalation_are_explicit(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_figure_multipanel_evidence.py | 61 | def test_corpus_examples_are_preserved_as_reasoning_anchors(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_figure_multipanel_evidence.py | 75 | def test_router_manifest_contract_and_shared_results_are_connected(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_figure_multipanel_evidence.py | 93 | def test_bilingual_docs_and_eval_expose_the_workflow(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_nature_figure_panel_alignment.py | 188 | def test_three_and_four_horizontal_equal_width_panels_pass(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_nature_figure_panel_alignment.py | 195 | def test_three_and_four_horizontal_unequal_width_panels_block(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_nature_figure_panel_alignment.py | 204 | def test_horizontal_width_check_compares_only_equal_grid_spans(self) -> None: | CODE |
| LOW⚡ | scripts/tests/test_nature_figure_panel_alignment.py | 210 | def test_intentional_horizontal_width_exception_requires_panel_width_reason(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_figure_panel_alignment.py | 60 | def asymmetric_vertical_manifest(spanning_side: str) -> dict[str, object]: | CODE |
| LOW | scripts/tests/test_nature_figure_panel_alignment.py | 114 | def test_single_panel_is_not_applicable_and_nonblocking(self) -> None: | CODE |
| LOW | scripts/tests/test_nature_figure_panel_alignment.py | 125 | def test_aligned_two_by_two_grid_passes(self) -> None: | CODE |
| 424 more matches not shown… | ||||
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| MEDIUM⚡ | …e-academic-search/mcp-server/academic_search_server.py | 645 | # --------------------------------------------------------------------------- | COMMENT |
| MEDIUM⚡ | …e-academic-search/mcp-server/academic_search_server.py | 647 | # --------------------------------------------------------------------------- | COMMENT |
| MEDIUM | …e-academic-search/mcp-server/academic_search_server.py | 36 | # --------------------------------------------------------------------------- | COMMENT |
| MEDIUM | …e-academic-search/mcp-server/academic_search_server.py | 38 | # --------------------------------------------------------------------------- | COMMENT |
| MEDIUM | …e-academic-search/mcp-server/academic_search_server.py | 83 | # --------------------------------------------------------------------------- | COMMENT |
| MEDIUM | …e-academic-search/mcp-server/academic_search_server.py | 85 | # --------------------------------------------------------------------------- | COMMENT |
| MEDIUM | …e-academic-search/mcp-server/academic_search_server.py | 159 | # --------------------------------------------------------------------------- | COMMENT |
| MEDIUM | …e-academic-search/mcp-server/academic_search_server.py | 161 | # --------------------------------------------------------------------------- | COMMENT |
| MEDIUM⚡ | …ature-academic-search/mcp-server/tests/test_sources.py | 44 | # =================================================================== | COMMENT |
| MEDIUM⚡ | …ature-academic-search/mcp-server/tests/test_sources.py | 46 | # =================================================================== | COMMENT |
| MEDIUM⚡ | …ature-academic-search/mcp-server/tests/test_sources.py | 221 | # =================================================================== | COMMENT |
| MEDIUM⚡ | …ature-academic-search/mcp-server/tests/test_sources.py | 223 | # =================================================================== | COMMENT |
| MEDIUM⚡ | …ature-academic-search/mcp-server/tests/test_sources.py | 799 | # =================================================================== | COMMENT |
| MEDIUM⚡ | …ature-academic-search/mcp-server/tests/test_sources.py | 801 | # =================================================================== | COMMENT |
| MEDIUM | …ature-academic-search/mcp-server/tests/test_sources.py | 15 | # --------------------------------------------------------------------------- | COMMENT |
| MEDIUM | …ature-academic-search/mcp-server/tests/test_sources.py | 17 | # --------------------------------------------------------------------------- | COMMENT |
| MEDIUM | …ature-academic-search/mcp-server/tests/test_sources.py | 592 | # =================================================================== | COMMENT |
| MEDIUM | …ature-academic-search/mcp-server/tests/test_sources.py | 594 | # =================================================================== | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 38 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 40 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 118 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 120 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 168 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 170 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 224 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 226 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 302 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 304 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 327 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/mcp-server/sources/arxiv.py | 329 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM⚡ | …/nature-academic-search/mcp-server/sources/crossref.py | 26 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM⚡ | …/nature-academic-search/mcp-server/sources/crossref.py | 28 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …/nature-academic-search/mcp-server/sources/crossref.py | 109 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …/nature-academic-search/mcp-server/sources/crossref.py | 111 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …/nature-academic-search/mcp-server/sources/crossref.py | 137 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …/nature-academic-search/mcp-server/sources/crossref.py | 139 | # ------------------------------------------------------------------ | COMMENT |
| MEDIUM | …lls/nature-academic-search/scripts/format-converter.py | 54 | # ── PubMed ────────────────────────────────────────────────────── | COMMENT |
| MEDIUM | …lls/nature-academic-search/scripts/format-converter.py | 130 | # ── CrossRef ──────────────────────────────────────────────────── | COMMENT |
| MEDIUM | …lls/nature-academic-search/scripts/format-converter.py | 168 | # ── arXiv ─────────────────────────────────────────────────────── | COMMENT |
| MEDIUM | …lls/nature-academic-search/scripts/format-converter.py | 206 | # ── Input parsing ─────────────────────────────────────────────── | COMMENT |
| MEDIUM | …lls/nature-academic-search/scripts/format-converter.py | 304 | # ── Main ──────────────────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-academic-search/scripts/converters.py | 66 | # ── MEDLINE -> RIS ────────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-academic-search/scripts/converters.py | 126 | # ── MEDLINE -> BibTeX ──────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-academic-search/scripts/converters.py | 177 | # ── CrossRef JSON -> RIS ───────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-academic-search/scripts/converters.py | 238 | # ── CrossRef JSON -> BibTeX ────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-academic-search/scripts/converters.py | 297 | # ── arXiv XML -> RIS ───────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-academic-search/scripts/converters.py | 352 | # ── arXiv XML -> BibTeX ────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-academic-search/scripts/converters.py | 410 | # ── MEDLINE -> ENW ─────────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-academic-search/scripts/converters.py | 454 | # ── CrossRef JSON -> ENW ────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-academic-search/scripts/converters.py | 505 | # ── arXiv XML -> ENW ────────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-academic-search/scripts/converters.py | 556 | # ── Format dispatch ───────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-figure/references/api.md | 154 | # ── MANDATORY: editable SVG text ────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-figure/references/api.md | 158 | # ── Layout & style ──────────────────────────────────────────────────────── | COMMENT |
| MEDIUM | skills/nature-figure/references/design-theory.md | 361 | # ── PRIMARY ── editable vector, text as <text> nodes ───────────────────────── | COMMENT |
| MEDIUM | skills/nature-figure/references/design-theory.md | 364 | # ── SECONDARY ── raster for quick preview / submission portals ──────────────── | COMMENT |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW | scripts/validate-readme-mirror.py | 11 | CODE | |
| LOW | scripts/validate-readme-mirror.py | 14 | CODE | |
| LOW | scripts/validate-workflows.py | 10 | CODE | |
| LOW | scripts/validate-readmes.py | 4 | CODE | |
| LOW | scripts/validate-skill-metadata.py | 14 | CODE | |
| LOW | scripts/validate-skill-metadata.py | 17 | CODE | |
| LOW | scripts/update-reference-tocs.py | 4 | CODE | |
| LOW | scripts/generate-star-history.py | 4 | CODE | |
| LOW | scripts/validate-repository.py | 10 | CODE | |
| LOW | scripts/validate-skill-index.py | 10 | CODE | |
| LOW | scripts/validate-skill-index.py | 13 | CODE | |
| LOW | scripts/tests/test_validate_skill_metadata.py | 1 | CODE | |
| LOW | scripts/tests/test_validate_workflows.py | 1 | CODE | |
| LOW | scripts/tests/test_nature_abstract_guidance.py | 1 | CODE | |
| LOW | scripts/tests/test_nature_social_science.py | 1 | CODE | |
| LOW | …ripts/tests/test_nature_results_discussion_guidance.py | 1 | CODE | |
| LOW | scripts/tests/test_nature_figure_multipanel_evidence.py | 1 | CODE | |
| LOW | scripts/tests/test_nature_figure_panel_alignment.py | 1 | CODE | |
| LOW | scripts/tests/test_nature_submission_requirements.py | 1 | CODE | |
| LOW | scripts/tests/test_discussion_argument_language.py | 1 | CODE | |
| LOW | scripts/tests/test_nature_figure_pdf_text_audit.py | 1 | CODE | |
| LOW | scripts/tests/test_nature_introduction_guidance.py | 1 | CODE | |
| LOW | scripts/tests/test_main_text_discipline.py | 1 | CODE | |
| LOW | …ipts/tests/test_nature_figure_ai_graphical_abstract.py | 1 | CODE | |
| LOW | scripts/tests/test_nmi_submission_requirements.py | 1 | CODE | |
| LOW | scripts/tests/test_nature_figure_collision_audit.py | 1 | CODE | |
| LOW | scripts/tests/test_generate_star_history.py | 1 | CODE | |
| LOW | …per-to-patent/tests/test_validation_figure_node_ids.py | 1 | CODE | |
| LOW | …paper-to-patent/tests/test_math_to_omml_superscript.py | 1 | CODE | |
| LOW | skills/nature-paper-to-patent/tests/test_validation.py | 2 | CODE | |
| LOW | skills/nature-paper-to-patent/tests/test_validation.py | 4 | CODE | |
| LOW | …ls/nature-paper-to-patent/tests/test_mermaid_render.py | 1 | CODE | |
| LOW | …er-to-patent/tests/test_md_to_docx_source_overwrite.py | 1 | CODE | |
| LOW | …nature-paper-to-patent/scripts/render_flowchart_svg.py | 366 | CODE | |
| LOW | …ature-paper-to-patent/scripts/disclosure/md_to_docx.py | 22 | CODE | |
| LOW | …paper-to-patent/scripts/disclosure/cnipa_epub_parse.py | 7 | CODE | |
| LOW | …r-to-patent/scripts/disclosure/iteration_dialog_log.py | 5 | CODE | |
| LOW | …e-paper-to-patent/scripts/disclosure/mermaid_render.py | 27 | CODE | |
| LOW | …ature-paper-to-patent/scripts/disclosure/docx_to_md.py | 14 | CODE | |
| LOW | …ature-paper-to-patent/scripts/disclosure/pptx_to_md.py | 14 | CODE | |
| LOW | …aper-to-patent/scripts/disclosure/cnipa_epub_search.py | 35 | CODE | |
| LOW | …aper-to-patent/scripts/disclosure/cnipa_epub_search.py | 107 | CODE | |
| LOW | …per-to-patent/scripts/disclosure/cnipa_epub_crawler.py | 41 | CODE | |
| LOW | …ture-paper-to-patent/scripts/disclosure/math_render.py | 18 | CODE | |
| LOW | skills/nature-paper2ppt/scripts/audit_pptx_quality.py | 9 | CODE | |
| LOW | skills/nature-paper2ppt/scripts/audit_pptx_quality.py | 14 | CODE | |
| LOW | skills/nature-citation/tests/test_author_exports.py | 1 | CODE | |
| LOW | skills/nature-citation/scripts/nature_citation.py | 9 | CODE | |
| LOW | skills/nature-downloader/scripts/configure_school.py | 4 | CODE | |
| LOW | skills/nature-downloader/scripts/configure_school.py | 16 | CODE | |
| LOW | …lls/nature-downloader/scripts/configure_credentials.py | 4 | CODE | |
| LOW | skills/nature-downloader/src/config.py | 7 | CODE | |
| LOW | skills/nature-downloader/src/validators.py | 11 | CODE | |
| LOW | skills/nature-downloader/src/schools_loader.py | 6 | CODE | |
| LOW | skills/nature-downloader/src/wizard.py | 18 | CODE | |
| LOW | skills/nature-downloader/src/wizard.py | 24 | CODE | |
| LOW | skills/nature-downloader/src/wizard.py | 25 | CODE | |
| LOW | skills/nature-downloader/src/health_check.py | 7 | CODE | |
| LOW | skills/nature-downloader/src/health_check.py | 11 | CODE | |
| LOW | …ills/nature-response/tests/test_package_consistency.py | 1 | CODE | |
| 91 more matches not shown… | ||||
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| HIGH | …aper-to-patent/scripts/disclosure/cnipa_epub_search.py | 20 | 需已安装：pip install -r scripts/disclosure/requirements-cnipa.txt && python -m playwright install chromium | STRING |
| HIGH | …aper-to-patent/scripts/disclosure/cnipa_epub_search.py | 110 | "ERROR: pip install -r scripts/disclosure/requirements-cnipa.txt && python -m playwright install chromium", | CODE |
| HIGH⚡ | skills/nature-citation/scripts/nature_citation.py | 2155 | const fromYear = Number(yearFromInput.value || 0); | CODE |
| HIGH⚡ | skills/nature-citation/scripts/nature_citation.py | 2156 | const toYear = Number(yearToInput.value || 0); | CODE |
| HIGH⚡ | skills/nature-citation/scripts/nature_citation.py | 2157 | const y = Number(year || 0); | CODE |
| HIGH⚡ | skills/nature-citation/scripts/nature_citation.py | 2158 | if (fromYear && (!y || y < fromYear)) return false; | CODE |
| HIGH⚡ | skills/nature-citation/scripts/nature_citation.py | 2159 | if (toYear && (!y || y > toYear)) return false; | CODE |
| HIGH | skills/nature-citation/scripts/nature_citation.py | 2037 | let currentDownloadUrl = null; | CODE |
| HIGH | skills/nature-citation/scripts/nature_citation.py | 2065 | currentDownloadUrl = null; | CODE |
| HIGH | skills/nature-citation/scripts/nature_citation.py | 2091 | articles.push(item.zotero_rdf_article); | CODE |
| HIGH | skills/nature-citation/scripts/nature_citation.py | 2093 | if (item.journal_resource && item.zotero_rdf_journal && !journals.has(item.journal_resource)) {{ | CODE |
| HIGH | skills/nature-citation/scripts/nature_citation.py | 2182 | const matches = yearPass(year) && queryPass(searchText) && (!selectedOnlyInput.checked || selectedMap.has(key) | CODE |
| HIGH | skills/nature-citation/scripts/nature_citation.py | 2188 | const matches = !selectedOnlyInput.checked && queryPass(card.dataset.segment || ''); | CODE |
| HIGH | skills/nature-image2ppt/tests/test_render_guard.py | 28 | self.assertLess(script.index("$app=$null;$deck=$null;"), script.index("try{")) | CODE |
| HIGH⚡ | skills/nature-image2ppt/scripts/render_image2ppt_qa.py | 85 | "$ErrorActionPreference='Stop';$app=$null;$deck=$null;" | CODE |
| HIGH⚡ | skills/nature-image2ppt/scripts/render_image2ppt_qa.py | 91 | "try{[System.Runtime.InteropServices.Marshal]::ReleaseComObject($deck)|Out-Null}catch{};$deck=$null};" | CODE |
| HIGH⚡ | skills/nature-image2ppt/scripts/render_image2ppt_qa.py | 93 | "try{[System.Runtime.InteropServices.Marshal]::ReleaseComObject($app)|Out-Null}catch{};$app=$null}" | CODE |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| HIGH | …ature-paper-to-patent/scripts/disclosure/md_to_docx.py | 715 | except (AttributeError, KeyError): | CODE |
| HIGH | …e-paper-to-patent/scripts/disclosure/mermaid_render.py | 129 | except OSError: | CODE |
| HIGH | …ature-paper-to-patent/scripts/disclosure/pptx_to_md.py | 127 | except (AttributeError, ValueError): | CODE |
| HIGH | …aper-to-patent/scripts/disclosure/cnipa_epub_search.py | 50 | except (OSError, ValueError, TypeError): | CODE |
| HIGH | …per-to-patent/scripts/disclosure/cnipa_epub_crawler.py | 103 | except Exception: | CODE |
| HIGH | …per-to-patent/scripts/disclosure/cnipa_epub_crawler.py | 107 | except Exception: | CODE |
| HIGH | …per-to-patent/scripts/disclosure/cnipa_epub_crawler.py | 61 | except (OSError, ValueError, TypeError): | CODE |
| HIGH | …per-to-patent/scripts/disclosure/cnipa_epub_crawler.py | 124 | except Exception: | CODE |
| HIGH | skills/nature-downloader/scripts/extract_pdf_text.py | 15 | except Exception: | CODE |
| HIGH | skills/nature-downloader/src/config.py | 91 | except OSError: | CODE |
| HIGH | …re-image2ppt/cli/image2ppt/runtime/formula_renderer.py | 231 | except ValueError: | CODE |
| HIGH | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 975 | except Exception: | CODE |
| HIGH | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 993 | except Exception: | CODE |
| HIGH | …ls/nature-academic-search/mcp-server/sources/pubmed.py | 132 | except ValueError: | CODE |
| HIGH | skills/nature-figure/scripts/audit_pdf_text.py | 107 | except ValueError: | CODE |
| HIGH | skills/nature-figure/scripts/audit_pdf_text.py | 113 | except ValueError: | CODE |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW | scripts/validate-skill-metadata.py | 65 | except Exception as exc: | CODE |
| LOW | scripts/validate-skill-metadata.py | 103 | except Exception as exc: | CODE |
| LOW | scripts/validate-skill-metadata.py | 235 | except Exception as exc: | CODE |
| LOW | …ature-paper-to-patent/scripts/disclosure/md_to_docx.py | 303 | except Exception: | CODE |
| LOW | …ature-paper-to-patent/scripts/disclosure/md_to_docx.py | 328 | except Exception: | CODE |
| LOW | …e-paper-to-patent/scripts/disclosure/mermaid_render.py | 218 | except Exception as e: | CODE |
| LOW | …ature-paper-to-patent/scripts/disclosure/docx_to_md.py | 74 | except Exception as e: | CODE |
| LOW | …ature-paper-to-patent/scripts/disclosure/pptx_to_md.py | 86 | except Exception as e: | CODE |
| LOW | …ature-paper-to-patent/scripts/disclosure/pptx_to_md.py | 111 | except Exception as e: | CODE |
| MEDIUM | …ature-paper-to-patent/scripts/disclosure/pptx_to_md.py | 21 | def _require_pptx(): | CODE |
| LOW | …aper-to-patent/scripts/disclosure/cnipa_epub_search.py | 127 | except Exception as e: | CODE |
| LOW⚡ | …per-to-patent/scripts/disclosure/cnipa_epub_crawler.py | 103 | except Exception: | CODE |
| LOW⚡ | …per-to-patent/scripts/disclosure/cnipa_epub_crawler.py | 107 | except Exception: | CODE |
| LOW | …per-to-patent/scripts/disclosure/cnipa_epub_crawler.py | 124 | except Exception: | CODE |
| LOW | …per-to-patent/scripts/disclosure/cnipa_epub_crawler.py | 233 | except Exception as e: | CODE |
| LOW | …ture-paper-to-patent/scripts/disclosure/math_render.py | 123 | except Exception as e: | CODE |
| LOW | skills/nature-citation/scripts/nature_citation.py | 355 | except Exception as exc: # noqa: BLE001 | CODE |
| LOW | skills/nature-citation/scripts/nature_citation.py | 703 | except Exception as exc: # noqa: BLE001 | CODE |
| LOW | skills/nature-citation/scripts/nature_citation.py | 1185 | except Exception as exc: # noqa: BLE001 | CODE |
| LOW | skills/nature-citation/scripts/nature_citation.py | 1317 | except Exception as exc: # noqa: BLE001 | CODE |
| LOW | skills/nature-citation/scripts/nature_citation.py | 1338 | except Exception as exc: # noqa: BLE001 | CODE |
| LOW | skills/nature-downloader/scripts/extract_pdf_text.py | 15 | except Exception: | CODE |
| LOW | skills/nature-downloader/scripts/extract_pdf_text.py | 61 | except Exception: | CODE |
| LOW | skills/nature-downloader/src/validators.py | 100 | except Exception as e: | CODE |
| LOW | skills/nature-downloader/src/validators.py | 138 | except Exception as e: | CODE |
| LOW | …ure-image2ppt/cli/image2ppt/runtime/deck_text_hints.py | 46 | except Exception: | CODE |
| LOW | …ure-image2ppt/cli/image2ppt/runtime/deck_text_hints.py | 124 | except Exception as exc: | CODE |
| LOW | …ure-image2ppt/cli/image2ppt/runtime/deck_text_hints.py | 147 | except Exception as exc: | CODE |
| MEDIUM | …e-image2ppt/cli/image2ppt/runtime/remove_chroma_key.py | 25 | print(f"Error: {message}", file=sys.stderr) | CODE |
| MEDIUM | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 147 | print(f"Error: {message}", file=sys.stderr) | STRING |
| LOW | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 250 | except Exception: | STRING |
| LOW | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 278 | except Exception: | STRING |
| LOW | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 975 | except Exception: | STRING |
| LOW | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 993 | except Exception: | STRING |
| MEDIUM | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 155 | def _runtime_env_path() -> Path: | CODE |
| LOW | …s/nature-image2ppt/cli/image2ppt/runtime/text_hints.py | 221 | except Exception: | CODE |
| LOW | …/nature-image2ppt/cli/image2ppt/runtime/runtime_env.py | 138 | except Exception: | CODE |
| LOW | …2ppt/cli/image2ppt/runtime/build_pptx_from_manifest.py | 975 | except Exception: | CODE |
| LOW | …2ppt/cli/image2ppt/runtime/build_pptx_from_manifest.py | 1024 | except Exception: | CODE |
| LOW | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 564 | except Exception as exc: | CODE |
| LOW | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 708 | except Exception as exc: | CODE |
| LOW | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 723 | except Exception as exc: | CODE |
| LOW | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 743 | except Exception as exc: | CODE |
| LOW | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 938 | except Exception as exc: | CODE |
| MEDIUM | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 145 | def manifest_schema_version(manifest): | CODE |
| LOW | …ls/nature-image2ppt/scripts/inspect_arrow_atomicity.py | 174 | except Exception as exc: | CODE |
| LOW | skills/nature-image2ppt/scripts/render_image2ppt_qa.py | 192 | except Exception as exc: | CODE |
| LOW | …ature-image2ppt/scripts/postprocess_manifest_arrows.py | 441 | except Exception as exc: | CODE |
| LOW | skills/nature-paper-trans/scripts/pages.py | 895 | except Exception as exc: | CODE |
| LOW⚡ | …e-academic-search/mcp-server/academic_search_server.py | 314 | except Exception as exc: | CODE |
| LOW⚡ | …e-academic-search/mcp-server/academic_search_server.py | 327 | except Exception as exc: | CODE |
| LOW⚡ | …e-academic-search/mcp-server/academic_search_server.py | 638 | except Exception as exc: | CODE |
| LOW | …e-academic-search/mcp-server/academic_search_server.py | 207 | except Exception as exc: | CODE |
| LOW | …e-academic-search/mcp-server/academic_search_server.py | 234 | except Exception as exc: | CODE |
| LOW | …e-academic-search/mcp-server/academic_search_server.py | 257 | except Exception as exc: | CODE |
| LOW | …e-academic-search/mcp-server/academic_search_server.py | 288 | except Exception as exc: | CODE |
| LOW | …e-academic-search/mcp-server/academic_search_server.py | 301 | except Exception as exc: | CODE |
| LOW | …e-academic-search/mcp-server/academic_search_server.py | 340 | except Exception as exc: | CODE |
| LOW | …e-academic-search/mcp-server/academic_search_server.py | 384 | except Exception as exc: | CODE |
| LOW | …e-academic-search/mcp-server/academic_search_server.py | 401 | except Exception as exc: | CODE |
| 17 more matches not shown… | ||||
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW | scripts/validate-skill-metadata.py | 152 | CODE | |
| LOW | scripts/generate-star-history.py | 146 | CODE | |
| LOW | scripts/validate-repository.py | 59 | CODE | |
| LOW | scripts/validate-repository.py | 76 | CODE | |
| LOW | …s/nature-paper-to-patent/scripts/render_patent_docx.py | 249 | CODE | |
| LOW | …nature-paper-to-patent/scripts/render_flowchart_svg.py | 30 | CODE | |
| LOW | skills/nature-paper-to-patent/scripts/math_to_omml.py | 60 | CODE | |
| LOW | …ature-paper-to-patent/scripts/disclosure/md_to_docx.py | 90 | CODE | |
| LOW | …ature-paper-to-patent/scripts/disclosure/md_to_docx.py | 527 | CODE | |
| LOW | …ature-paper-to-patent/scripts/disclosure/md_to_docx.py | 700 | CODE | |
| LOW | …e-paper-to-patent/scripts/disclosure/mermaid_render.py | 148 | CODE | |
| LOW | …e-paper-to-patent/scripts/disclosure/mermaid_render.py | 321 | CODE | |
| LOW | …ature-paper-to-patent/scripts/disclosure/pptx_to_md.py | 65 | CODE | |
| LOW | …ture-paper-to-patent/scripts/disclosure/math_render.py | 166 | CODE | |
| LOW | skills/nature-citation/scripts/nature_citation.py | 1328 | CODE | |
| LOW | skills/nature-downloader/src/validators.py | 19 | CODE | |
| LOW | skills/nature-downloader/src/wizard.py | 36 | CODE | |
| LOW | …s/nature-response/scripts/check_package_consistency.py | 57 | CODE | |
| LOW | …ills/nature-image2ppt/tests/test_isolated_lifecycle.py | 23 | CODE | |
| LOW | …lls/nature-image2ppt/tests/test_multi_agent_backend.py | 445 | CODE | |
| LOW | …lls/nature-image2ppt/tests/test_multi_agent_backend.py | 1920 | CODE | |
| LOW | skills/nature-image2ppt/tests/test_runtime_config.py | 50 | CODE | |
| LOW | skills/nature-image2ppt/tests/test_independence.py | 11 | CODE | |
| LOW | …ure-image2ppt/cli/image2ppt/runtime/deck_text_hints.py | 87 | CODE | |
| LOW | …e-image2ppt/cli/image2ppt/runtime/remove_chroma_key.py | 263 | CODE | |
| LOW | …e-image2ppt/cli/image2ppt/runtime/remove_chroma_key.py | 282 | CODE | |
| LOW | …2ppt/cli/image2ppt/runtime/build_pptx_from_manifest.py | 201 | CODE | |
| LOW | …2ppt/cli/image2ppt/runtime/build_pptx_from_manifest.py | 219 | CODE | |
| LOW | …2ppt/cli/image2ppt/runtime/build_pptx_from_manifest.py | 806 | CODE | |
| LOW | …2ppt/cli/image2ppt/runtime/build_pptx_from_manifest.py | 863 | CODE | |
| LOW | …2ppt/cli/image2ppt/runtime/build_pptx_from_manifest.py | 892 | CODE | |
| LOW | …2ppt/cli/image2ppt/runtime/build_pptx_from_manifest.py | 917 | CODE | |
| LOW | …mage2ppt/cli/image2ppt/runtime/_input_normalization.py | 60 | CODE | |
| LOW | …mage2ppt/cli/image2ppt/runtime/_input_normalization.py | 108 | CODE | |
| LOW | …mage2ppt/cli/image2ppt/runtime/_input_normalization.py | 304 | CODE | |
| LOW | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 167 | CODE | |
| LOW | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 335 | CODE | |
| LOW | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 503 | CODE | |
| LOW | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 639 | CODE | |
| LOW | …ature-image2ppt/cli/image2ppt/runtime/validate_pptx.py | 809 | CODE | |
| LOW | …ge2ppt/cli/image2ppt/runtime/record_imagegen_result.py | 11 | CODE | |
| LOW | …ge2ppt/cli/image2ppt/runtime/split_alpha_components.py | 42 | CODE | |
| LOW | …ge2ppt/cli/image2ppt/runtime/split_alpha_components.py | 113 | CODE | |
| LOW | …ls/nature-image2ppt/scripts/inspect_arrow_atomicity.py | 96 | CODE | |
| LOW | skills/nature-image2ppt/scripts/render_image2ppt_qa.py | 116 | CODE | |
| LOW | …ature-image2ppt/scripts/postprocess_manifest_arrows.py | 370 | CODE | |
| LOW | …ture-image2ppt/scripts/inspect_region_decomposition.py | 84 | CODE | |
| LOW | skills/nature-reader/scripts/validate_reader_math.py | 58 | CODE | |
| LOW | skills/nature-shared/scripts/check_consistency.py | 120 | CODE | |
| LOW | skills/nature-shared/scripts/check_consistency.py | 253 | CODE | |
| LOW | skills/nature-paper-trans/tests/test_pages.py | 208 | CODE | |
| LOW | skills/nature-paper-trans/tests/test_pages.py | 300 | CODE | |
| LOW | skills/nature-paper-trans/tests/test_pages.py | 422 | CODE | |
| LOW | skills/nature-paper-trans/tests/test_pages.py | 504 | CODE | |
| LOW | skills/nature-paper-trans/scripts/pages.py | 196 | CODE | |
| LOW | skills/nature-paper-trans/scripts/pages.py | 362 | CODE | |
| LOW | skills/nature-paper-trans/scripts/pages.py | 582 | CODE | |
| LOW | skills/nature-paper-trans/scripts/pages.py | 849 | CODE | |
| LOW | skills/nature-paper-card/scripts/prepare_paper.py | 98 | CODE | |
| LOW | …e-academic-search/mcp-server/academic_search_server.py | 455 | CODE | |
| 17 more matches not shown… | ||||
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW | …ills/nature-proposal-writer/references/compose-mode.md | 55 | ### Step 1: Intake Q&A → `00_scope.md` | COMMENT |
| LOW | …ills/nature-proposal-writer/references/compose-mode.md | 69 | ### Step 2: Build `01_research_canon.md` | COMMENT |
| LOW | …ills/nature-proposal-writer/references/compose-mode.md | 91 | ### Step 3: Build `02_evidence_table.md` | COMMENT |
| LOW | …ills/nature-proposal-writer/references/compose-mode.md | 110 | ### Step 4: Build `03_argument_map.md` | COMMENT |
| LOW | …ills/nature-proposal-writer/references/compose-mode.md | 130 | ### Step 5: Build `04_section_contracts.md` | COMMENT |
| LOW | …ills/nature-proposal-writer/references/compose-mode.md | 162 | ### Step 6: Foundation review | COMMENT |
| LOW | …ills/nature-proposal-writer/references/compose-mode.md | 172 | ### Step 7: Draft section by section | COMMENT |
| LOW | …ills/nature-proposal-writer/references/compose-mode.md | 188 | ### Step 8: Full proposal QA | COMMENT |
| LOW | …ills/nature-proposal-writer/references/compose-mode.md | 198 | ### Step 9: Export | COMMENT |
| LOW | skills/nature-proposal-writer/references/revise-mode.md | 29 | ### Step 1: Classify the text | COMMENT |
| LOW | skills/nature-proposal-writer/references/revise-mode.md | 53 | ### Step 2: Extract claims | COMMENT |
| LOW | skills/nature-proposal-writer/references/revise-mode.md | 73 | ### Step 3: Compare claims with canon/evidence | COMMENT |
| LOW | skills/nature-proposal-writer/references/revise-mode.md | 88 | ### Step 4: Diagnose structure | COMMENT |
| LOW | skills/nature-proposal-writer/references/revise-mode.md | 104 | ### Step 5: Professor review | COMMENT |
| LOW | skills/nature-proposal-writer/references/revise-mode.md | 117 | ### Step 6: Anti-slop scan | COMMENT |
| LOW | skills/nature-proposal-writer/references/revise-mode.md | 130 | ### Step 7: Generate revision brief | COMMENT |
| LOW | skills/nature-proposal-writer/references/revise-mode.md | 148 | ### Step 8: Revise | COMMENT |
| LOW | skills/nature-proposal-writer/references/revise-mode.md | 160 | ### Step 9: Rescore | COMMENT |
| LOW | skills/nature-ref-verifier/SKILL.md | 28 | ### Step 1: 解析输入 | COMMENT |
| LOW | skills/nature-ref-verifier/SKILL.md | 43 | ### Step 2: 多源并行查询 | COMMENT |
| LOW | skills/nature-ref-verifier/SKILL.md | 61 | ### Step 3: 字段级对比 | COMMENT |
| LOW | skills/nature-ref-verifier/SKILL.md | 96 | ### Step 4: 置信度评估 | COMMENT |
| LOW | skills/nature-ref-verifier/SKILL.md | 107 | ### Step 5: 输出报告 | COMMENT |
| LOW | …/nature-literature-pipeline/references/gap-analysis.md | 12 | ### Step 1: Multi-source search | COMMENT |
| LOW | …/nature-literature-pipeline/references/gap-analysis.md | 21 | ### Step 2: Decompose and classify | COMMENT |
| LOW | …/nature-literature-pipeline/references/gap-analysis.md | 37 | ### Step 3: Extract edge papers | COMMENT |
| LOW | …/nature-literature-pipeline/references/gap-analysis.md | 46 | ### Step 4: Output gap report | COMMENT |
| LOW | …ls/nature-academic-search/mcp-server/sources/pubmed.py | 195 | # Step 1: esearch to get WebEnv + query_key | COMMENT |
| LOW | …ls/nature-academic-search/mcp-server/sources/pubmed.py | 220 | # Step 2: efetch to get article details | COMMENT |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| HIGH | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 77 | image2ppt config --api-key "your-api-key" --image-backend openai-compatible-api \ | CODE |
| HIGH | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 515 | 'image2ppt config --api-key "your-api-key" ' | STRING |
| HIGH | …ls/nature-image2ppt/cli/image2ppt/runtime/image_gen.py | 520 | command = f'image2ppt config --api-key "your-api-key" --model {model}' | STRING |
| HIGH | skills/nature-image2ppt/cli/image2ppt/runtime/main.py | 499 | image2ppt config --api-key "your-api-key" --model gpt-image-2 | CODE |
| HIGH | skills/nature-image2ppt/cli/image2ppt/runtime/main.py | 500 | image2ppt config --api-key "your-api-key" --image-backend openai-compatible-api --base-url https://example.test/v1 --m | CODE |
| HIGH | skills/nature-image2ppt/cli/image2ppt/runtime/main.py | 807 | image2ppt config --api-key "your-api-key" --image-backend openai-compatible-api --base-url https://example.test/v1 --m | CODE |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW | scripts/autoupdate-skills.sh | 1 | #!/usr/bin/env bash | COMMENT |
| LOW | scripts/autoupdate-skills.sh | 21 | # - Cheap: it re-syncs skills only when upstream changed or destination drift | COMMENT |
| LOW | scripts/update-codex-skills.sh | 1 | #!/usr/bin/env bash | COMMENT |
| LOW | skills/nature-downloader/data/schools.yaml | 1 | # Intentionally empty. | COMMENT |
| LOW | skills/nature-image2ppt/config.example.yaml | 1 | # Project-level Skill: copy this file to ./config.yaml and fill secrets locally. | COMMENT |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW | …s/nature-paper-to-patent/scripts/render_patent_docx.py | 18 | def set_run_font(run, name: str, size: float, bold: bool = False) -> None: | CODE |
| LOW | …ature-image2ppt/scripts/postprocess_manifest_arrows.py | 141 | def set_object_name(obj: ET.Element, value: str) -> None: | CODE |
| LOW | …ls/nature-academic-search/mcp-server/utils/__init__.py | 7 | __all__ = [ | CODE |
| LOW | …/nature-academic-search/mcp-server/sources/__init__.py | 9 | __all__ = [ | CODE |
| LOW | skills/nature-figure/scripts/figure_safety.py | 50 | __all__ = ["interp_monotone", "label_y_above"] | CODE |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| HIGH | …ls/nature-academic-search/mcp-server/sources/pubmed.py | 243 | Fetch a single article by PMID. Args: pmid: PubMed ID (numeric string). Returns: | STRING |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| MEDIUM | skills/nature-figure/references/r-workflow.md | 7 | - [Contract scaffold](#contract-scaffold) | CODE |
| MEDIUM | skills/nature-figure/references/r-workflow.md | 43 | ## Contract scaffold | COMMENT |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW | …ture-paper-to-patent/scripts/disclosure/math_render.py | 70 | CODE | |
| LOW | …re-image2ppt/cli/image2ppt/runtime/formula_renderer.py | 41 | CODE | |
| LOW | …e-academic-search/mcp-server/academic_search_server.py | 346 | CODE | |
| LOW | …/figures4papers/figure_Dispersion/plot_illustration.py | 65 | CODE |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW | scripts/autoupdate-skills.sh | 24 | # Usage: | COMMENT |
| LOW | scripts/update-codex-skills.sh | 18 | # Usage: | COMMENT |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW | …ls/nature-academic-search/mcp-server/sources/pubmed.py | 195 | # Step 1: esearch to get WebEnv + query_key | COMMENT |
| LOW | …ls/nature-academic-search/mcp-server/sources/pubmed.py | 220 | # Step 2: efetch to get article details | COMMENT |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| MEDIUM | …/figures4papers/figure_Dispersion/plot_illustration.py | 46 | # normalize (robust against tiny numerical drift) | COMMENT |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| MEDIUM | …ets/figures4papers/figure_RNAGenScape/plot_manifold.py | 23 | # Define a multi-well "energy" function (inverted to form valleys) | COMMENT |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW | skills/nature-academic-search/install.sh | 76 | # Check if academic-search already exists | COMMENT |
| Severity | File | Line | Snippet | Context |
|---|---|---|---|---|
| LOW⚡ | …/nature-academic-search/mcp-server/sources/crossref.py | 20 | mailto = config.crossref_mailto or "user@example.com" | CODE |