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render-manuscript-draft-3

Render MANUSCRIPT_DRAFT.md to PDF (retry-3 with xelatex fmt fix)

Metadata

Statusabandoned ‖ paused
Agent identityf51439356729d112a6c404803d88015d5b44832c6c584c62b96732b63c2b0c7e
Created2026-05-05T17:53:18.348452220+00:00
Started2026-05-05T17:55:38.725516565+00:00
Tagspaper-prep, render, retry, eval-scheduled
Failure reasonsuperseded: pivoting to typst via cargo install

Description

GOAL: produce paper_prep/synthesis/MANUSCRIPT_DRAFT.pdf from paper_prep/synthesis/MANUSCRIPT_DRAFT.md.

CONTEXT FROM PRIOR FAILURE (render-manuscript-draft-2): xelatex failed with 'Fatal format file error: xelatex.fmt made by different executable version'. The texlive format file is stale relative to the installed xelatex binary in the guix profile. See render.log at /moosefs/erikg/phrs/.wg-worktrees/agent-735/paper_prep/synthesis/render.log for the exact error.

ENVIRONMENT (already verified by coordinator):

  • pandoc 2.19.2 at /home/erikg/.guix-profile/bin/pandoc
  • xelatex at /home/erikg/.guix-profile/bin/xelatex (BUT format file is broken)
  • pdflatex at /home/erikg/.guix-profile/bin/pdflatex (status unknown — try it)
  • weasyprint NOT installed
  • paper_prep/synthesis/MANUSCRIPT_DRAFT.md exists (34399 bytes)
  • paper_prep/synthesis/REFERENCES.bib exists (17959 bytes)

TASK — try in order, log every attempt with 'wg log':

  1. Try regenerating the xelatex format file: fmtutil-sys --byfmt xelatex 2>&1 | tee fmt_regen.log (may need 'fmtutil --all' or 'mktexfmt xelatex.fmt' depending on the texlive setup; try the variants if --byfmt fails). After regen succeeds, attempt the xelatex render below.
  2. Render with xelatex (if fmt fix worked): cd paper_prep/synthesis && pandoc MANUSCRIPT_DRAFT.md
    --pdf-engine=xelatex --toc
    --citeproc --bibliography=REFERENCES.bib
    -V geometry:margin=1in
    -o MANUSCRIPT_DRAFT.pdf 2>&1 | tee render.log Drop -V mainfont/-V monofont; let xelatex pick defaults. If --citeproc fails on REFERENCES.bib, retry without --citeproc and log the citeproc error.
  3. If xelatex still broken after fmt regen, fall back to pdflatex: cd paper_prep/synthesis && pandoc MANUSCRIPT_DRAFT.md
    --pdf-engine=pdflatex --toc
    --citeproc --bibliography=REFERENCES.bib
    -V geometry:margin=1in
    -o MANUSCRIPT_DRAFT.pdf 2>&1 | tee render.log pdflatex needs raster figures, so if any \includegraphics{...pdf} fails, convert that PDF to PNG with 'pdftoppm -png -r 200 INPUT OUTPUT_PREFIX' into a temp dir, then make a working copy of the markdown that points to the PNGs and render that copy. Figures live under paper_prep/figures/{fig1..fig4,ed1..ed8}/.
  4. If pdflatex also fails, install weasyprint via guix as last resort: guix install weasyprint then retry pandoc with --pdf-engine=weasyprint (HTML+CSS path; raster figures will be needed).
  5. Verify: 'file paper_prep/synthesis/MANUSCRIPT_DRAFT.pdf' reports 'PDF document'; 'pdfinfo paper_prep/synthesis/MANUSCRIPT_DRAFT.pdf' shows >= 5 pages.
  6. Record paper_prep/synthesis/MANUSCRIPT_DRAFT.pdf as a wg artifact. DO NOT git add (it's gitignored).
  7. Save render.log to paper_prep/synthesis/render.log; do NOT git add.

ACCEPTANCE: paper_prep/synthesis/MANUSCRIPT_DRAFT.pdf exists, file reports 'PDF document', pdfinfo >= 5 pages, wg artifact recorded. If unrecoverable after all four engines, 'wg fail' with the SPECIFIC error from each attempt (paste the error lines into the failure message).

Depends on

Required by

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