update Makefiles for pre-generate references on git LFS (72233d08) · Commits · github_fork / Universc

test/cellranger_reference/cellranger-tiny-ref/Makefile

+21 −4

Original line number	Diff line number	Diff line
		@@ -6,10 +6,21 @@ all: reference

		reference:
		echo "generating cellranger references"
		cellranger mkref --genome=1.2.0 --fasta=genome-1.2.0.fa --genes=genes-1.2.0.gtf
		rm -rf genome-1.2.0.fa genes-1.2.0.gtf
		cellranger mkref --genome=3.0.0 --fasta=genome-3.0.0.fa --genes=genes-3.0.0.gtf
		rm -rf genome-3.0.0.fa genes-3.0.0.gtf
		@if [ "test" = "test" ]; then\
		echo "Hello world";\
		fi
		@if [ ! -d 1.2.0 ]; then\
		echo cellranger mkref --genome=1.2.0 --fasta=genome-1.2.0.fa --genes=genes-1.2.0.gtf;\
		rm -rf genome-1.2.0.fa genes-1.2.0.gtf;\
		else\
		echo "reference 1.2.0 pre-generated";\
		fi
		@if [ ! -d 3.0.0 ]; then\
		echo cellranger mkref --genome=3.0.0 --fasta=genome-3.0.0.fa --genes=genes-3.0.0.gtf;\
		rm -rf genome-3.0.0.fa genes-3.0.0.gtf;\
		else\
		echo "reference 3.0.0 pre-generated";\
		fi

		##########################################
		# Generic rules
		@@ -19,8 +30,14 @@ clean:
		echo "moving fasta and gtf from cellranger reference"
		mv 1.2.0/fasta/genome.fa genome-1.2.0.fa
		mv 1.2.0/genes/genes.gtf genes-1.2.0.gtf
		@if [ -d 3.0.0 ]; then\
		rm -rf 1.2.0;\
		fi
		mv 3.0.0/fasta/genome.fa genome-3.0.0.fa
		mv 3.0.0/genes/genes.gtf genes-3.0.0.gtf
		@if [ -d 3.0.0 ]; then\
		rm -rf 3.0.0;\
		fi

		mrproper: clean
		rm -f *~ $(EXEC)