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-rw-r--r--paper/Makefile102
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-## The path to the directory in which this file resides. This allows users to
-## include this Makefile into theirs and to reuse all rules, given that they set
-## this variable to the correct value.
-PANDOC_SCHOLAR_PATH ?= $(shell dirname $(realpath $(lastword $(MAKEFILE_LIST))))
-
-# include local makefile to allow easy overwriting of variables
--include local.mk
-include $(PANDOC_SCHOLAR_PATH)/pandoc-options.inc.mk
-
-LUA_FILTERS_PATH ?= $(PANDOC_SCHOLAR_PATH)/lua-filters
-
-# Configuration (overwrite using Makefile.local.in if necessary)
-ARTICLE_FILE ?= mutagenicity.md
-OUTFILE_PREFIX ?= outfile
-DEFAULT_EXTENSIONS ?= latex pdf docx odt epub html
-JSON_FILE ?= $(OUTFILE_PREFIX).enriched.json
-FLATTENED_JSON_FILE ?= $(OUTFILE_PREFIX).flattened.json
-LUA_FILTERS ?= $(LUA_FILTERS_PATH)/cito/cito.lua \
- $(LUA_FILTERS_PATH)/abstract-to-meta/abstract-to-meta.lua \
- $(LUA_FILTERS_PATH)/scholarly-metadata/scholarly-metadata.lua
-
-
-all: $(addprefix $(OUTFILE_PREFIX).,$(DEFAULT_EXTENSIONS))
-
-$(JSON_FILE): $(ARTICLE_FILE) $(LUA_FILTERS)
- pandoc $(PANDOC_READER_OPTIONS) \
- $(foreach filter, $(LUA_FILTERS), --lua-filter=$(filter)) \
- --to=json \
- --output=$@ $<
-
-$(OUTFILE_PREFIX).pdf $(OUTFILE_PREFIX).latex: \
- $(JSON_FILE) \
- $(TEMPLATE_FILE_LATEX) \
- $(PANDOC_SCHOLAR_PATH)/scholar-filters/template-helper.lua
- pandoc $(PANDOC_WRITER_OPTIONS) \
- $(PANDOC_LATEX_OPTIONS) \
- --lua-filter=$(PANDOC_SCHOLAR_PATH)/scholar-filters/template-helper.lua \
- --output $@ $<
-
-$(OUTFILE_PREFIX).docx: $(JSON_FILE) \
- $(ODT_REFERENCE_FILE) \
- $(LUA_FILTERS_PATH)/author-info-blocks/author-info-blocks.lua
- pandoc $(PANDOC_WRITER_OPTIONS) \
- $(PANDOC_DOCX_OPTIONS) \
- --lua-filter=$(LUA_FILTERS_PATH)/author-info-blocks/author-info-blocks.lua \
- --output $@ $<
-
-$(OUTFILE_PREFIX).odt: $(JSON_FILE) \
- $(ODT_REFERENCE_FILE) \
- $(LUA_FILTERS_PATH)/author-info-blocks/author-info-blocks.lua
- pandoc $(PANDOC_WRITER_OPTIONS) \
- $(PANDOC_ODT_OPTIONS) \
- --lua-filter=$(LUA_FILTERS_PATH)/author-info-blocks/author-info-blocks.lua \
- --output $@ $<
-
-$(OUTFILE_PREFIX).epub: $(JSON_FILE) \
- $(TEMPLATE_FILE_EPUB) \
- $(LUA_FILTERS_PATH)/author-info-blocks/author-info-blocks.lua
- pandoc $(PANDOC_WRITER_OPTIONS) \
- $(PANDOC_EPUB_OPTIONS) \
- --lua-filter=$(LUA_FILTERS_PATH)/author-info-blocks/author-info-blocks.lua \
- --output $@ $<
-
-$(OUTFILE_PREFIX).html: $(JSON_FILE) \
- $(TEMPLATE_FILE_HTML) \
- $(TEMPLATE_STYLE_HTML) \
- $(PANDOC_SCHOLAR_PATH)/scholar-filters/template-helper.lua
- pandoc $(PANDOC_WRITER_OPTIONS) \
- $(PANDOC_HTML_OPTIONS) \
- --lua-filter=$(PANDOC_SCHOLAR_PATH)/scholar-filters/template-helper.lua \
- --css=$(TEMPLATE_STYLE_HTML) \
- --self-contained \
- --mathjax \
- --output $@ $<
-
-$(OUTFILE_PREFIX).jsonld: $(JSON_FILE) \
- $(BIBLIOGRAPHY_FILE) \
- $(PANDOC_SCHOLAR_PATH)/scholar-filters/json-ld.lua \
- $(PANDOC_SCHOLAR_PATH)/writers/jsonld.lua
- pandoc --to $(PANDOC_SCHOLAR_PATH)/writers/jsonld.lua \
- --metadata "bibliography:$(BIBLIOGRAPHY_FILE)" \
- --lua-filter=$(PANDOC_SCHOLAR_PATH)/scholar-filters/json-ld.lua \
- --output=$@ $<
-
-$(OUTFILE_PREFIX).txt: $(ARTICLE_FILE)
- pandoc $(PANDOC_WRITER_OPTIONS) \
- --output $@ $<
-
-## Advanced JATS support is temporarily disabled.
-$(OUTFILE_PREFIX).jats: $(JSON_FILE)
- pandoc $(PANDOC_WRITER_OPTIONS) \
- $(PANDOC_JATS_OPTIONS) \
- --output $@ $<
-
-clean:
- rm -f $(OUTFILE_PREFIX).*
-
-.PHONY: all clean
-
-# Include archive-generating targets. This makefile is not included in the
-# distributed archives
--include archives.inc.mk