TEX = pdflatex -shell-escape -interaction=nonstopmode 
BIBTEX = bibtex
MD  = pandoc
MDFLAGS = --to=latex
SEC := $(wildcard *.md)
OPT := $(SEC:.md=.tex)

all: paper.pdf

view: 
	open paper.pdf

pdf: 
	$(TEX) paper.tex

doc:
	$(MD) -s paper.tex -o paper.docx 
	
paper.pdf: $(OPT)
	sed -i .bak 's/{figure}/{figure*}/' ./tex/SEC_FineScaleSurvey.tex
	sed -i .bak 's/{figure}/{figure*}/' ./tex/SEC_SubtractiveHydrography.tex
	$(TEX) paper.tex
	$(BIBTEX) paper
	$(TEX) paper.tex
	$(TEX) paper.tex
		
%.tex:
	$(MD) $(MDFLAGS) $(@:.tex=.md) -o ./tex/$@ 
	@echo "TEX GEN COMPLETE"

clean: 
	rm *.aux *.log paper.pdf ./tex/* *.bbl *.docx *.blg *.out

bib: 
	$(BIBTEX) paper