Makefile

PKGNAME := $(shell sed -n "s/Package: *\([^ ]*\)/\1/p" DESCRIPTION)
PKGVERS := $(shell sed -n "s/Version: *\([^ ]*\)/\1/p" DESCRIPTION)
PKGSRC  := $(shell basename `pwd`)
BIOCVER := RELEASE_3_20


all: rd check clean

rd:
	Rscript -e 'roxygen2::roxygenise(".")'

vignette:
	cd vignettes;\
	Rscript -e 'rmarkdown::render("seqcombo.Rmd")';\
	mv seqcombo.html ../docs/index.html

build:
	cd ..;\
	R CMD build $(PKGSRC)

build2:
	cd ..;\
	R CMD build --no-build-vignettes $(PKGSRC)

install:
	cd ..;\
	R CMD INSTALL $(PKGNAME)_$(PKGVERS).tar.gz

check: build
	cd ..;\
	Rscript -e 'rcmdcheck::rcmdcheck("$(PKGNAME)_$(PKGVERS).tar.gz")'

check2: build
	cd ..;\
	R CMD check $(PKGNAME)_$(PKGVERS).tar.gz

bioccheck:
	cd ..;\
	Rscript -e 'BiocCheck::BiocCheck("$(PKGNAME)_$(PKGVERS).tar.gz")'

clean:
	cd ..;\
	$(RM) -r $(PKGNAME).Rcheck/

rmrelease:
	git branch -D $(BIOCVER)

release:
	git checkout $(BIOCVER);\
	git fetch --all

update:
	git fetch --all;\
	git checkout devel;\
	git merge upstream/devel;\
	git merge origin/devel

push: update
	git push upstream devel;\
	git push origin devel

biocinit:
	git remote add upstream git@git.bioconductor.org:packages/$(PKGNAME).git;\
	git fetch --all