milestone 2 submission

Makefile

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+# Makefile for IRB Application
+
+# Tools
+LATEXMk = latexmk
+PDFLATEX = pdflatex
+
+# Directories
+BUILD_DIR = build
+OUT_DIR = out
+APPENDIX_DIR = appendices
+
+# Files
+MAIN_SRC = irbapplication.tex
+APPENDICES_SRC = $(wildcard $(APPENDIX_DIR)/*.tex)
+
+# Targets
+all: main appendices
+
+# Build main application
+main: $(MAIN_SRC)
+	mkdir -p $(BUILD_DIR) $(OUT_DIR)
+	$(PDFLATEX) -output-directory=$(BUILD_DIR) $(MAIN_SRC)
+	mv $(BUILD_DIR)/irbapplication.pdf $(OUT_DIR)/
+
+# Build appendices
+appendices: $(APPENDICES_SRC)
+	mkdir -p $(BUILD_DIR) $(OUT_DIR)
+	for file in $(APPENDICES_SRC); do \
+		$(PDFLATEX) -output-directory=$(BUILD_DIR) $$file; \
+		mv $(BUILD_DIR)/*.pdf $(OUT_DIR)/; \
+	done
+
+# Clean build artifacts
+clean:
+	rm -rf $(BUILD_DIR)
+	rm -f *.aux *.log *.out *.toc *.synctex.gz *.fls *.fdb_latexmk
+
+# Clean strictly (remove output too)
+distclean: clean
+	rm -rf $(OUT_DIR)
+
+.PHONY: all main appendices clean distclean