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Journal submission normalizer

Skill zhoy0409-debug/scholarflow-skills/skills/journal-submission-normalizer

ScholarFlow Skills by Zhoy: reusable Agent Skills for literature review, academic writing, figures, bioinformatics, and research deliverables.

Install
npx -y skills add zhoy0409-debug/scholarflow-skills --skill journal-submission-normalizer

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Use when a researcher needs a manuscript checked and normalized against a target journal's official submission and formatting requirements, with a compliance report before submission.

SKILL.md

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Journal Submission Normalizer

Normalize a manuscript to the official requirements of a target journal before submission.

This skill is designed for the detail work that often causes avoidable submission delays: formatting rules scattered across author instructions, PDF templates, style files, submission-system checklists, and publisher pages.

Core Principle

Submission formatting should be evidence-based:

  • use official journal sources first;
  • extract rules into a visible matrix before editing;
  • separate verified rules from uncertain or missing rules;
  • preserve scientific meaning while changing formatting;
  • return both the normalized manuscript and a compliance report.

Reference

Load references/official-source-playbook.md when searching for author instructions, templates, journal policies, or submission-system requirements.

Workflow

1. Confirm scope

Collect:

  • target journal name and publisher;
  • manuscript file format: DOCX, LaTeX, Markdown, PDF-derived text, or mixed files;
  • article type: original research, review, case report, meta-analysis, short communication, letter, methods, protocol, etc.;
  • submission stage: initial submission, revised submission, final production, or resubmission;
  • required output format: edited DOCX, LaTeX patch, Markdown checklist, or compliance report only.

If the target journal is not confirmed, ask the user to choose one before applying journal-specific formatting.

2. Search official requirements

Use current online sources and prioritize:

  1. official journal author instructions;
  2. publisher submission guidelines;
  3. official article templates, style files, or sample manuscripts;
  4. submission-system checklists;
  5. official reference-style examples;
  6. official ethics, data, funding, conflict-of-interest, and AI-use policies.

Do not rely on third-party summaries unless official sources are unavailable, and label third-party information as unverified.

3. Extract a rule matrix

Before editing, build a rule matrix covering:

  • article type and word limits;
  • title page fields;
  • abstract type, length, and structure;
  • keywords;
  • font, font size, line spacing, margins, page numbering;
  • heading levels and numbering;
  • figure size, resolution, file format, color mode, and caption rules;
  • table formatting and footnotes;
  • abbreviations, units, symbols, superscripts, and subscripts;
  • reference style, citation style, DOI/PMID requirements, maximum references;
  • ethics approval, consent, trial registration, data availability, funding, author contributions, competing interests, acknowledgements, and AI-use statement;
  • cover letter, highlights, graphical abstract, supplementary files, file naming, and submission checklist.

Mark each item as:

  • verified;
  • not specified;
  • conflicting sources;
  • needs user confirmation.

4. Normalize the manuscript

Apply only changes that are supported by the rule matrix or by standard scholarly formatting norms when the journal is silent.

Typical operations:

  • normalize title page order and required fields;
  • adjust heading hierarchy;
  • standardize abstract and keyword formatting;
  • normalize font, spacing, paragraph style, and page numbering;
  • standardize figure and table callouts;
  • check captions and legends;
  • fix obvious superscript/subscript formatting issues without changing scientific meaning;
  • align reference and citation style as far as possible from available metadata;
  • add or flag required declarations;
  • prepare a submission file checklist.

For DOCX, preserve track changes only if the user asks. For LaTeX, prefer a patch or edited source files. For PDF-only input, state that formatting edits require a source file.

5. Produce a compliance report

Return a clear report with:

  1. sources consulted;
  2. extracted rule matrix;
  3. changes made;
  4. unresolved requirements;
  5. user confirmations needed;
  6. final submission checklist.

Output Contract

Return one or more of:

  • normalized manuscript file or patch;
  • rule matrix;
  • compliance report;
  • unresolved issue list;
  • final submission checklist.

Guardrails

  • Do not invent journal rules.
  • Do not silently change scientific meaning, results, units, author list, affiliations, ethics statements, or references.
  • Do not fabricate missing metadata such as DOI, funding number, ethics approval, trial registration, or author contribution.
  • Do not claim the manuscript is accepted or guaranteed submission-ready; say it is formatted against the checked rules.
  • If official requirements conflict, show the conflict and ask the user or use the most journal-specific current source.

Keep looking

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