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| trimmomatic_version := 0.32 | |
| trimmomatic := Trimmomatic-$(trimmomatic_version) | |
| trimmomatic_bin := lib/$(trimmomatic)/trimmomatic-$(trimmomatic_version).jar | |
| bismark_version := v0.12.3 | |
| bismark := bismark_$(bismark_version) | |
| bismark_bin := lib/$(bismark)/bismark | |
| bowtie_version := 1.1.1 | |
| bowtie := bowtie-$(bowtie_version)-linux-x86_64 | |
| bowtie_bin := lib/bowtie-$(bowtie_version)/bowtie | |
| install: bismark trimmomatic bowtie | |
| bismark: $(bismark_bin) | |
| trimmomatic: $(trimmomatic_bin) | |
| bowtie: $(bowtie_bin) | |
| lib/$(trimmomatic).zip: | |
| curl -L -o $@ http://www.usadellab.org/cms/uploads/supplementary/Trimmomatic/$(trimmomatic).zip | |
| $(trimmomatic_bin): lib/$(trimmomatic).zip | |
| cd lib; unzip $(<F) | |
| touch $@ | |
| lib/$(bismark).tar.gz: | |
| curl -L -o $@ http://www.bioinformatics.babraham.ac.uk/projects/bismark/$(bismark).tar.gz | |
| $(bismark_bin): lib/$(bismark).tar.gz | |
| cd lib; tar -xzf $(<F) | |
| touch $@ | |
| lib/$(bowtie).zip: | |
| curl -L -o $@ http://downloads.sourceforge.net/project/bowtie-bio/bowtie/1.1.1/$(bowtie).zip | |
| $(bowtie_bin): lib/$(bowtie).zip | |
| cd lib; unzip $(<F) | |
| touch $@ |