6 files changed, 0 insertions, 273 deletions
diff --git a/paper/lua-filters/cito/Makefile b/paper/lua-filters/cito/Makefile
deleted file mode 100644
index 1997818..0000000
--- a/paper/lua-filters/cito/Makefile
+++ /dev/null
@@ -1,6 +0,0 @@
-test:
-	@pandoc --lua-filter=cito.lua --output=output.md --standalone sample.md
-	@diff -u expected.md output.md
-	@rm -f output.md
-
-.PHONY: test
diff --git a/paper/lua-filters/cito/README.md b/paper/lua-filters/cito/README.md
deleted file mode 100644
index b0e2cd3..0000000
--- a/paper/lua-filters/cito/README.md
+++ /dev/null
@@ -1,76 +0,0 @@
-# cito
-
-This filter extracts optional CiTO (Citation Typing Ontology)
-information from citations and stores the information in the
-document's metadata. The extracted info is intended to be used in
-combination with other filters, templates, or custom writers. It
-is mandatory to run pandoc-citeproc *after* this filter if CiTO
-data is embedded in the document; otherwise pandoc-citeproc will
-interpret CiTO properties as part of the citation ID.
-
-## Using the Citation Typing Ontology
-
-The [citation typing ontology] (CiTO) allows authors to specify the
-reason a citation is given. This is helpful for the authors and
-their co-authors, and furthermore adds data that can be used by
-readers to search and navigate relevant publications.
-
-A CiTO annotation must come before the citation key and be
-followed by a colon. E.g., `@method_in:towbin_1979` signifies
-that the citation with ID *towbin_1979* is cited because the
-method described in that paper has been used in the paper at
-hand.
-
-[citation typing ontology]: http://purl.org/spar/cito
-
-## Recognized CiTO properties
-
-Below is the list of CiTO properties recognized by the filter,
-together with the aliases that can be used as shorthands.
-
-- agrees_with
-  - agree_with
-- citation
-- cites
-- cites_as_authority
-  - as_authority
-  - authority
-- cites_as_data_source
-- cites_as_evidence
-  - as_evidence
-  - evidence
-- cites_as_metadata_document
-  - as_metadata_document
-  - metadata_document
-  - metadata
-- cites_as_recommended_reading
-  - as_recommended_reading
-  - recommended_reading
-- disagrees_with
-  - disagree
-  - disagrees
-- disputes
-- documents
-- extends
-- includes_excerpt_from
-  - excerpt
-  - excerpt_from
-- includes_quotation_from
-  - quotation
-  - quotation_from
-- obtains_background_from
-  - background
-  - background_from
-- refutes
-- replies_to
-- updates
-- uses_data_from
-  - data
-  - data_from
-- uses_method_in
-  - method
-  - method_in
-
-## References
-
-This approach was described in <https://doi.org/10.7717/peerj-cs.112>.
diff --git a/paper/lua-filters/cito/cito.lua b/paper/lua-filters/cito/cito.lua
deleted file mode 100644
index a1a3421..0000000
--- a/paper/lua-filters/cito/cito.lua
+++ /dev/null
@@ -1,138 +0,0 @@
--- Copyright © 2017–2019 Albert Krewinkel, Robert Winkler
---
--- This library is free software; you can redistribute it and/or modify it
--- under the terms of the MIT license. See LICENSE for details.
-
-local _version = '1.0.0'
-local properties_and_aliases = {
-  agrees_with = {
-    'agree_with'
-  },
-  citation = {
-  },
-  cites = {
-  },
-  cites_as_authority = {
-    'as_authority',
-    'authority'
-  },
-  cites_as_data_source = {
-    "as_data_source",
-    "data_source"
-  },
-  cites_as_evidence = {
-    'as_evidence',
-    'evidence'
-  },
-  cites_as_metadata_document = {
-    'as_metadata_document',
-    'metadata_document',
-    'metadata'
-  },
-  cites_as_recommended_reading = {
-    'as_recommended_reading',
-    'recommended_reading'
-  },
-  disagrees_with = {
-    'disagree',
-    'disagrees'
-  },
-  disputes = {
-  },
-  documents = {
-  },
-  extends = {
-  },
-  includes_excerpt_from = {
-    'excerpt',
-    'excerpt_from'
-  },
-  includes_quotation_from = {
-    'quotation',
-    'quotation_from'
-  },
-  obtains_background_from = {
-    'background',
-    'background_from'
-  },
-  refutes = {
-  },
-  replies_to = {
-  },
-  updates = {
-  },
-  uses_data_from = {
-    'data',
-    'data_from'
-  },
-  uses_method_in = {
-    'method',
-    'method_in'
-  },
-}
-
-local default_cito_property = 'citation'
-
---- Map from cito aliases to the actual cito property.
-local properties_by_alias = {}
-for property, aliases in pairs(properties_and_aliases) do
-  -- every property is an alias for itself
-  properties_by_alias[property] = property
-  for _, alias in pairs(aliases) do
-    properties_by_alias[alias] = property
-  end
-end
-
---- Split citation ID into cito property and the actual citation ID. If
---- the ID does not seem to contain a CiTO property, the
---- `default_cito_property` will be returned, together with the
---- unchanged input ID.
-local function split_cito_from_id (citation_id)
-  local pattern = '^(.+):(.+)$'
-  local prop_alias, split_citation_id = citation_id:match(pattern)
-
-  if properties_by_alias[prop_alias] then
-    return properties_by_alias[prop_alias], split_citation_id
-  end
-
-  return default_cito_property, citation_id
-end
-
---- Citations by CiTO properties.
-local function store_cito (cito_cites, prop, cite_id)
-  if not prop then
-    return
-  end
-  if not cito_cites[prop] then
-    cito_cites[prop] = {}
-  end
-  table.insert(cito_cites[prop], cite_id)
-end
-
---- Returns a Cite filter function which extracts CiTO information and
---- add it to the given collection table.
-local function extract_cito (cito_cites)
-  return function (cite)
-    for k, citation in pairs(cite.citations) do
-      local cito_prop, cite_id = split_cito_from_id(citation.id)
-      store_cito(cito_cites, cito_prop, cite_id)
-      citation.id = cite_id
-    end
-    return cite
-  end
-end
-
---- Lists of citation IDs, indexed by CiTO properties.
-local citations_by_property = {}
-
-return {
-  {
-    Cite = extract_cito(citations_by_property)
-  },
-  {
-    Meta = function (meta)
-      meta.cito_cites = citations_by_property
-      return meta
-    end
-  }
-}
diff --git a/paper/lua-filters/cito/expected.md b/paper/lua-filters/cito/expected.md
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index 707ff74..0000000
--- a/paper/lua-filters/cito/expected.md
+++ /dev/null
@@ -1,19 +0,0 @@
----
-cito_cites:
-  cites_as_evidence:
-  - Li95
-  cites_as_recommended_reading:
-  - 'Upper\_writers\_1974'
----
-
-Abstract
-========
-
-This is an example article. It was written under the influence of
-coffee, which acts to counter fatigue [@Li95].
-
-Further reading
-===============
-
-Authors struggling to fill their document with content are referred to
-@Upper_writers_1974.
diff --git a/paper/lua-filters/cito/sample.bib b/paper/lua-filters/cito/sample.bib
deleted file mode 100644
index 4a4ff62..0000000
--- a/paper/lua-filters/cito/sample.bib
+++ /dev/null
@@ -1,24 +0,0 @@
-@article{Li95,
-  author =        {L. Linde},
-  journal =       {Ergonomics},
-  pages =         {864--885},
-  title =         {Mental effects of caffeine in fatigued and
-                   non-fatigued female and male subjects},
-  volume =        {38},
-  year =          {1995},
-}
-
-@article{Upper_writers_1974,
-  author =        {Upper, Dennis},
-  journal =       {Journal of Applied Behavior Analysis},
-  number =        {3},
-  pages =         {497--497},
-  publisher =     {Blackwell Publishing Ltd},
-  title =         {The unsuccessful self-treatment of a case of
-                   “writer's block”},
-  volume =        {7},
-  year =          {1974},
-  doi =           {10.1901/jaba.1974.7-497a},
-  issn =          {1938-3703},
-  url =           {http://dx.doi.org/10.1901/jaba.1974.7-497a},
-}
diff --git a/paper/lua-filters/cito/sample.md b/paper/lua-filters/cito/sample.md
deleted file mode 100644
index a9989cb..0000000
--- a/paper/lua-filters/cito/sample.md
+++ /dev/null
@@ -1,10 +0,0 @@
-# Abstract
-
-This is an example article. It was written under the influence of
-coffee, which acts to counter fatigue [@cites_as_evidence:Li95].
-
-
-# Further reading
-
-Authors struggling to fill their document with content are referred to
-@recommended_reading:Upper_writers_1974.