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# Makefile for seqdb
# Copyright(c) Osamu Gotoh <<o.gotoh@aist.go.jp>>
# last modified 2014/12/12
.SUFFIXES: .idx .faa .fn .cf .gf .mfa .grp .bka .bkn .bkp .spn .srd
# for this example, the following four commands will
# generate cDNA-genome mapping in the simplified
# Nagasaki format
# % make dictdisc.cf
# % makeidx.pl -in dictdisc_g.gf
# % make dictdisc.srd
clear:
rm -f *.ent *.idx *.grp *.odr *.seq *.bka *.bkn *.bkp
rm -f *.srd *.err *.grd *.erd *.qrd
rm -f *.gf *.cf *.faa *.spn
.cf.idx:
mv $< $*
makdbs -KD $*
mv $* $<
.fn.idx:
mv $< $*
makdbs -KD $*
mv $* $<
.gf.idx:
mv $< $*
makdbs -KD $*
mv $* $<
.gf.bkp:
./makblk.pl -W$@ $(OPT) $<
.gf.bkn:
./makblk.pl -W$@ $(OPT) $<
.faa.idx:
mv $< $*
makdbs -KP $*
mv $* $<
.faa.bka:
./makblk.pl -W$@ $(OPT) $<
.mfa.idx:
mv $< $*
makdbs -KD $*
mv $* $<
.mfa.bkn:
./makblk.pl -W$@ $(OPT) $<
.mfa.bkp:
./makblk.pl -W$@ $(OPT) $<
.grp.bka:
./makblk.pl -W$@ $(OPT) $<
.grp.bkn:
./makblk.pl -W$@ -G $(OPT) $<
.grp.bkp:
./makblk.pl -W$@ -G $(OPT) $<
.faa.spn:
(spaln -Q7 -O7 -d$*_g -T$* $< > $@) 2> $*spp.err
.cf.srd:
(time spaln -Q7 -O12 -LS -M -pq -d$*_g $<) 2> $*.err
sortgrcd $* > $@
dictdisc_g.gf: dictdisc_g.gf.gz
gzip -cd dictdisc_g.gf.gz > $@
dictdisc.faa: dictdisc.faa.gz
gzip -cd dictdisc.faa.gz > $@
dictdisc.cf: dictdisc.cf.gz
gzip -cd dictdisc.cf.gz > $@
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