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---
# Standard Scrivener+Pandoc Project YAML metadata
# IMPORTANT: YAML configuration files use SPACES for indentation to define structure, remember to straighten any smart quotes, and don't capitalise metadata keys like "author" or "title", they must be lowercase!
title: "Consolidating Semantic Interoperability in
Contemporary Architectural Paradigms"
author:
  - name: Paul Brandt
    affiliation: 1
    correspondence: [email protected]
    equal_contributor: true
  - name: His coAuthor
    affiliation: 2
    equal_contributor: true   
  - name: His coPromoter   
    affiliation: 3     
  - name: His promoter     
    affiliation: 1  
institute:
  - ^1^ University of Technology, The Netherlands.
  - ^2^ Ministry of Silly Walks, London, UK.
  - ^3^ Secondary University of Technology (SUT), The Netherlands.
keywords:
  - software architectures
  - semantic architectures
  - semantics
  - pragmatics
  - ontology
  - semantic principles
compiled: 11/08/2021
date: Wednesday, 11 August 2021
comments: "To err is human; ... err?"
# Select which templates pandocomatic will use
# you can enter overrides to the templates here as well
pandocomatic_:
  use-template:
    - paper-with-refs-latex

---

### Pandocomatic Configuration ###
# IMPORTANT: 
# YAML configuration files uses spaces for indentation to define structure
#
# Path values are normally relative to the Pandoc data dir: /Users/MYNAME/.pandoc
# so csl/apa.csl will be searched as /Users/MYNAME/.pandoc/csl/apa.csl
# see https://heerdebeer.org/Software/markdown/pandocomatic/#specifying-paths 
#
# This has been updated for the Pandoc V2.11 citeproc engine, not the older filter
templates:
#-----------------------------------------------------------------------------
  myrefs:
    setup: [] #runs a general script to rename or copy files before anything is run
    preprocessors: [] #runs a script on the markdown file itself
    pandoc:
      citeproc: true #this enables the built-in citeproc engine
      bibliography: "./mwe.bib" # my local bibtex file, 
      csl: "csl/apa.csl" #CSL style file, in the csl/ folder of pandoc data-dir
    metadata:
      reference-section-title: "Bibliography"
      notes-after-punctuation: false #don't put refs after .
      link-citations: true #hyperlink intext references to the bibliography
      csl-hanging-indent: true #try to add hanging indents to formatted bibliogrpahy
    postprocessors: [] #runs on the output file (unless it is binary like docx)
    cleanup: [] #general cleanup script
#-----------------------------------------------------------------------------
  paper-with-refs-latex:
    extends: ['myrefs'] #we can inherit from other templates
    pandoc:
      from: markdown
      to: latex
      template: "templates/custom.latex" #customised pandoc template
      toc: true
      toc-depth: 4
    metadata: 
      mainfont: 'Hoefler Text'
      sansfont: 'Avenir Next'
      monofont: 'Menlo'
      CJKmainfont: 'PingFang SC'
      lang: 'en-GB'
      papersize: 'A4'
      documentclass: 'article'
      fontsize: '12pt'
      linestretch: '1.75'
      geometry: 'margin=2cm'

pandoc	--from=markdown \
	--to=latex \
	--template=/Users/paulbrandt/.local/share/pandoc/templates/custom.latex \
	--toc \
	--toc-depth=2 \
	--citeproc \
	--bibliography=mwe.bib \
	--csl=apa.csl

Pandoc responded with:

Error compiling template "/Users/paulbrandt/.local/share/pandoc/templates/custom.latex" (line 607, column 15):
unexpected end of input
expecting "$--", "\n", "\r\n", "\r", "$", "${" or "$$"

paulbrandt$ pandocomatic -b -c ./pandocomatic.yaml ./mwe.md 
The pandoc option 'verbatim' (with value 'true') is not recognized by paru. This option is skipped.
pandoc	--to=latex \
	--standalone \
	--from=markdown \
	--template=/Users/paulbrandt/.local/share/pandoc/templates/custom.latex \
	--toc \
	--toc-depth=2 \
	--filter=/Users/paulbrandt/.local/share/pandoc/filters/assimilateMetadata.rb \
	--citeproc \
	--bibliography=mwe.bib \
	--csl=apa.csl \
	--output=/Users/paulbrandt/Workspace/pandocomaticMWE/mwe/issue-dotPandoc/mwe.pdf
Error producing PDF.
! Undefined control sequence.
l.38 \newfontfamily

paulbrandt$ pandocomatic -b -c ./pandocomatic.yaml ./mwe.md 
The pandoc option 'verbatim' (with value 'true') is not recognized by paru. This option is skipped.
pandoc	--from=markdown \
	--to=latex \
	--template=/Users/paulbrandt/.local/share/pandoc/templates/custom.latex \
	--toc \
	--toc-depth=2 \
	--standalone \
	--filter=/Users/paulbrandt/.local/share/pandoc/filters/assimilateMetadata.rb \
	--citeproc \
	--bibliography=mwe.bib \
	--csl=apa.csl
Pandocomatic needed 0.9 seconds to convert '/Users/paulbrandt/Workspace/pandocomaticMWE/mwe/issue-dotPandoc/mwe.md' to 'mwe.tex'.

---
# Standard Scrivener+Pandoc Project YAML metadata
<...snip...>
pandocomatic_:
  use-template:  
    - pdf  
#    - paper-with-refs-latex
---

<...snip...>
pandocomatic_:
  use-template:  
#    - pdf  
    - paper-with-refs-latex
---

paulbrandt$ pdflatex mwe.tex
This is pdfTeX, Version 3.141592653-2.6-1.40.23 (TeX Live 2022/dev) (preloaded format=pdflatex)
 restricted \write18 enabled.
entering extended mode
... <snip> ...
! Undefined control sequence.
l.38 \newfontfamily
                   \fixfont[]{Cambria}
? 

     1	% Options for packages loaded elsewhere
     2	\PassOptionsToPackage{unicode}{hyperref}
     3	\PassOptionsToPackage{hyphens}{url}
     4	\PassOptionsToPackage{dvipsnames,svgnames,x11names}{xcolor}
     5	\PassOptionsToPackage{space}{xeCJK}
 <...snip...>
    16	\ifPDFTeX
    17	  \usepackage[T1]{fontenc}
    18	  \usepackage[utf8]{inputenc}
    19	  \usepackage{textcomp} % provide euro and other symbols
    20	\else % if luatex or xetex
<...snip...>
    36	\fi
    37	% use Cambria/Arial Unicode to fix some font substitution problems for e.g. {\fixfont⬄}
    38	\newfontfamily\fixfont[]{Cambria}
    39	\newfontfamily\fixfontB[]{Arial Unicode MS}
    40	% customise titles
    41	\usepackage{xcolor}
    42	\usepackage{titlesec}