# -----------------------------------------------------------------------
#   Build and install things
# -----------------------------------------------------------------------
.PHONY: build
build:
	jbuilder build

.PHONY: install
install:
	jbuilder install

.PHONY: build_docker
build_docker:
	@for dir in ./etc/docker/*; \
	do\
		cd $${dir}; \
		bash ./build_docker.sh; \
		cd - ; \
	done

.PHONY: push_docker
push_docker:
	@for dir in ./etc/docker/*; \
	do\
		cd $${dir}; \
		bash ./build_docker.sh push_yes; \
		cd - ; \
	done

# -----------------------------------------------------------------------
#   Tests
# -----------------------------------------------------------------------
.PHONY: test_simu
test_simu:
	cd example && \
	reviewphiltrans simulation --outdir outdir --tree-dir trees --profile-fn aa_fitness/tiragesBloomK30.tsv --preview --np 4 && \
	mv dag.dot dagtest_sim.dot && \
	dot -Tsvg dagtest_sim.dot -o dagtest_sim.svg

.PHONY: test_det
test_det:
	cd example && \
	reviewphiltrans detection --outdir outdir/detection --indir outdir/data --preview --np 4 --fast && \
	mv dag.dot dagtest_det.dot && \
	dot -Tsvg dagtest_det.dot -o dagtest_det.svg

.PHONY: test_val
test_val:
	cd example && \
	reviewphiltrans validation --outdir outdir_validation --tree-dir trees --profile-fn aa_fitness/263SelectedProfiles.tsv --preview  --ns 5 --fast --no-ne --np 4 && \
	mv dag.dot dagtest_val.dot && \
	dot -Tsvg dagtest_val.dot -o dagtest_val.svg

# -----------------------------------------------------------------------
#   experiments on real data (only Besnard)
# -----------------------------------------------------------------------
.PHONY: fast_real
fast_real:
	cd example && \
	reviewphiltrans detection --outdir outdir_real_data --indir real_data --fast --np 4 && \
	mv dag.dot dagtest_real.dot && \
	dot -Tpdf dagtest_real.dot -o dagtest_real.pdf

.PHONY: real
real:
	cd example && \
	reviewphiltrans detection --outdir outdir_real_data --indir real_data --np 4 && \
	mv dag.dot dagtest_real.dot && \
	dot -Tpdf dagtest_real.dot -o dagtest_real.pdf

# -----------------------------------------------------------------------
#   experiments on threshold choices
# -----------------------------------------------------------------------
.PHONY: analyses_we
analyses_we:
	cd example && \
	reviewphiltrans validation --outdir outdir_analyses_we --tree-dir trees_analyses_weekend --profile-fn aa_fitness/263SelectedProfiles.tsv --np 28 --ns 1000 && \
	mv dag.dot daganalyses_we.dot

.PHONY: analyses_night
analyses_night:
	cd example && \
	reviewphiltrans validation --outdir outdir_analyses_night --tree-dir trees_analyses_night --profile-fn aa_fitness/263SelectedProfiles.tsv --np 27 --ns 100 --fast           && \
	reviewphiltrans validation --outdir outdir_analyses_night --tree-dir trees_analyses_night --profile-fn aa_fitness/263SelectedProfiles.tsv --np 27 --ns 100 --fast --ne-test && \
	reviewphiltrans validation --outdir outdir_analyses_night --tree-dir trees_analyses_night --profile-fn aa_fitness/263SelectedProfiles.tsv --np 27 --ns 100                  && \
	reviewphiltrans validation --outdir outdir_analyses_night --tree-dir trees_analyses_night --profile-fn aa_fitness/263SelectedProfiles.tsv --np 27 --ns 100        --ne-test && \
	mv dag.dot dag_analyses_night.dot


.PHONY: analyses_night2
analyses_night2:
	cd example && \
	reviewphiltrans validation --outdir outdir_analyses_night2_ne_test --tree-dir trees_analyses_night2 --profile-fn aa_fitness/263SelectedProfiles.tsv --np 28 --ne-test --ns 100 --fast && \
	reviewphiltrans validation --outdir outdir_analyses_night2         --tree-dir trees_analyses_night2 --profile-fn aa_fitness/263SelectedProfiles.tsv --np 28           --ns 100 && \
	reviewphiltrans validation --outdir outdir_analyses_night2_ne_test --tree-dir trees_analyses_night2 --profile-fn aa_fitness/263SelectedProfiles.tsv --np 28 --ne-test --ns 100 && \
	mv dag.dot dag_analyses_night2.dot

.PHONY: analyses_night3
analyses_night3:
	cd example && \
	reviewphiltrans validation --outdir outdir_analyses_night3_ne_test --tree-dir trees_analyses_night3 --profile-fn aa_fitness/263SelectedProfiles.tsv --np 28 --ne-test --ns 100 --fast && \
	reviewphiltrans validation --outdir outdir_analyses_night3_ne_test --tree-dir trees_analyses_night3 --profile-fn aa_fitness/263SelectedProfiles.tsv --np 28            --ns 100       && \
	reviewphiltrans validation --outdir outdir_analyses_night3_ne_test --tree-dir trees_analyses_night3 --profile-fn aa_fitness/263SelectedProfiles.tsv --np 28 --ne-test --ns 100 && \
	mv dag.dot dag_analyses_night3.dot


.PHONY: analyses_night5
analyses_night5:
	cd example && \
	reviewphiltrans validation --outdir outdir_analyses_night5 --tree-dir trees_analyses_night --profile-fn aa_fitness/263SelectedProfiles.tsv --preview --np 28 --no-ne --no-hapc --ns 200 --fast && \
	reviewphiltrans validation --outdir outdir_analyses_night5 --tree-dir trees_analyses_night --profile-fn aa_fitness/263SelectedProfiles.tsv           --np 28 --no-ne --no-hapc --ns 200 --fast && \
	reviewphiltrans validation --outdir outdir_analyses_night5 --tree-dir trees_analyses_night --profile-fn aa_fitness/263SelectedProfiles.tsv           --np 28 --no-ne --no-hapc --ns 200        && \
	mv dag.dot dag_analyses_night4.dot

# -----------------------------------------------------------------------
#   Cleaning and formatting
# -----------------------------------------------------------------------
.PHONY: clean
clean:
	rm -rf _build
	rm -rf example/_bistro
	rm -rf example/outdir

.PHONY: clean_test
clean_test:
	rm -rf example/_bistro
	rm -rf example/outdir
	rm -rf example/report.log
	rm -rf example/dot.dag

.PHONY: format
format:
	ocp-indent -i lib/*.ml lib/*.mli app/*.ml