# Timestamp: "2025-09-27 18:59:28 (ywatanabe)"
# File: ./paper/config/config_supplementary.yaml

verbosity:
  pdflatex: true
  bibtex: true

citation:
  # Citation style configuration
  # For natbib-based styles (simple, works out of the box):
  #   - unsrtnat         : Numbered [1], order of appearance (Vancouver-like)
  #   - plainnat         : Numbered [1], alphabetical by author
  #   - abbrvnat         : Numbered, abbreviated names
  #   - apalike          : Author-year, APA-like style
  #   - IEEEtran         : IEEE Transactions style
  #   - naturemag        : Nature magazine style
  #   - elsarticle-num   : Elsevier numbered, alphabetical
  #   - elsarticle-harv  : Elsevier Harvard (author-year)
  #
  # For biblatex-based styles (requires switching from natbib to biblatex):
  #   See 00_shared/latex_styles/bibliography.tex for instructions on:
  #   - apa, chicago-authordate, mla, mhra, ieee, nature, etc.
  style: "unsrtnat"  # Default: numbered citations, order of appearance

paths:
  doc_root_dir: "./02_supplementary"
  doc_log_dir: "./02_supplementary/logs"
  global_log_file: "./02_supplementary/logs/global.log"
  base_tex: "./02_supplementary/base.tex"
  compiled_tex: "./02_supplementary/supplementary.tex"
  compiled_pdf: "./02_supplementary/supplementary.pdf"
  diff_tex: "./02_supplementary/supplementary_diff.tex"
  diff_pdf: "./02_supplementary/supplementary_diff.pdf"
  archive_dir: "./02_supplementary/archive"
  texlive_apptainer_sif: "./.cache/containers/texlive_container.sif"
  mermaid_apptainer_sif: "./.cache/containers/mermaid_container.sif"
  imagemagick_apptainer_sif: "./.cache/containers/imagemagick_container.sif"
  
figures:
  dir: "./02_supplementary/contents/figures"
  caption_media_dir: "./02_supplementary/contents/figures/caption_and_media"
  jpg_dir: "./02_supplementary/contents/figures/caption_and_media/jpg_for_compilation"
  compiled_dir: "./02_supplementary/contents/figures/compiled"
  compiled_file: "./02_supplementary/contents/figures/compiled/FINAL.tex"
  templates_dir: "./00_shared/templates/figures"
  template_pptx: "./00_shared/templates/figures/.00_TEMPLATE.pptx"  
  template_tif: "./00_shared/templates/figures/.00_TEMPLATE.tif"  
  template_jpg: "./00_shared/templates/figures/.00_TEMPLATE.jpg"
  template_jnb: "./00_shared/templates/figures/.00_TEMPLATE.JNB"  

tables:
  dir: "./02_supplementary/contents/tables"
  caption_media_dir: "./02_supplementary/contents/tables/caption_and_media"
  compiled_dir: "./02_supplementary/contents/tables/compiled"
  compiled_file: "./02_supplementary/contents/tables/compiled/FINAL.tex"

misc:
  wordcount_dir: "./02_supplementary/contents/wordcounts"
  tree_txt: "./02_supplementary/docs/tree.txt"

# EOF