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  • Committer: Bazaar Package Importer
  • Author(s): Aaron M. Ucko
  • Date: 2008-07-14 19:43:15 UTC
  • mfrom: (2.1.12 intrepid)
  • Revision ID: james.westby@ubuntu.com-20080714194315-ed44u9ek7txva2rz
Tags: 6.1.20080302-3
http://bugs.debian.org/490437
tools/readdb.c: enable madvise()-based code on all glibc (hence all
Debian) systems, not just Linux.  (Closes: #490437.)

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Lines of Context:
debian/rules
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#!/usr/bin/make -f
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include /usr/share/cdbs/1/rules/buildcore.mk
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include /usr/share/cdbs/1/class/langcore.mk
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include /usr/share/cdbs/1/rules/debhelper.mk
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include /usr/share/cdbs/1/rules/utils.mk
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DEB_DH_INSTALL_SOURCEDIR   = debian/tmp
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# The -V must be last here.
9
 
DEB_DH_MAKESHLIBS_ARGS_ALL = -V
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DEB_INSTALL_CHANGELOGS_ALL = README
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DEB_INSTALL_DOCS_ALL      += -X.svn
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pkgroot = debian/$(cdbs_curpkg)
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docdir  = $(pkgroot)/usr/share/doc/$(cdbs_curpkg)
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DEB_VERSION=$(shell dpkg-parsechangelog | awk '/^Version:/ { print $$2 }')
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export NCBI_VERSION_FULL=$(DEB_VERSION)
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export NCBI_VERSION=$(word 1, $(subst -, ,$(NCBI_VERSION_FULL)))
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export NCBI_VERSION_MAJOR=$(word 1, $(subst ., ,$(NCBI_VERSION)))
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endif
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NETENTREZVERSION = 2.02c2ASN1SPEC6
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CFLAGS += -Wall
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ifeq ($(DEB_HOST_ARCH),alpha)
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CFLAGS += -mieee
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endif
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export NCBI_LBSM_SRC=ncbi_lbsmd_stub.c
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export NCBI_LBSM_OBJ=ncbi_lbsmd_stub.o
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CURDIR := $(shell pwd)
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ifeq ($(LD_LIBRARY_PATH),)
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export LD_LIBRARY_PATH:=$(CURDIR)/shlib
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else
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MTAPPS = blast blastall blastall_old blastpgp seedtop megablast rpsblast \
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         blastclust
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VIB = Psequin sbtedit Nentrez udv ddv blastcl3 idfetch bl2seq asn2gb tbl2asn \
 
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VIB = Psequin sbtedit udv ddv blastcl3 idfetch bl2seq asn2gb tbl2asn \
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      gene2xml entrez2 gbseqget asn2all asn2asn asn2fsa asn2xml asnval \
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      cleanasn insdseqget nps2gps spidey trna2sap trna2tbl $(OGL_TARGETS)
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ICONS = debian/asntool.xpm debian/ncbilogo.xpm
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# MAKE_IN_BULD = $(MAKE) -C build
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MAKE_IN_BUILD = cd build  &&  pmake
92
 
 
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common-configure-arch common-configure-indep:: debian/stamp-setup
94
 
 
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debian/stamp-setup:
 
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MAKE_IN_BUILD = $(MAKE) -C build
 
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build: build-stamp
 
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build-stamp:
 
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#       dh build
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        cd build && ln -s ../make/*.unx .
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        ln -s ../make/ln-if-absent build
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        mv build/makeall.unx build/makefile
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        chmod +x debian/makemenu debian/installman
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        touch $@
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common-build-arch:: debian/stamp-built
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debian/stamp-shlibs:
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#       $(MAKE_IN_BUILD) clean
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        $(MAKE_IN_BUILD) all $(COMMON_FLAGS) $(USESHLIB) \
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            CFLAGS1="-c $(CFLAGS) $(PNG_INCLUDE) -fPIC" \
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            LIB4=libvibrant.a LIB20=libncbidesk.a LIB28=libvibgif.a \
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        $(MAKE_IN_BUILD) -f makenet.unx $(COMMON_FLAGS) $(USESHLIB) \
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            CFLAGS1="-c $(CFLAGS) -fPIC" NETENTREZVERSION="$(NETENTREZVERSION)" \
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            BLIB31=libvibnet.a OGLLIBS="$(OGLLIBS) $(PNG_LIBS)" all $(OTHERS)
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        touch $@
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debian/stamp-built: debian/stamp-shlibs
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# Clear out the PIC objects
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        $(MAKE_IN_BUILD) clean
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#       date > VERSION
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        touch $@
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clean::
 
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clean:
 
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        dh clean
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        -rm -rf build/* bin/* include/* lib/* shlib
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        -rm -f debian/stamp-built debian/stamp-shlibs debian/stamp-setup
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        -rm -f debian/*.menu $(ICONS)
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148
 
common-install-arch::
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#       $(MAKE) install DESTDIR=$(CURDIR)/debian/tmp
 
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install-common: install-common-stamp
 
126
install-common-stamp: build-stamp
 
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        dh install --before dh_install
 
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        touch $@
 
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install-arch: install-arch-stamp
 
131
install-arch-stamp: install-common-stamp
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        install -d debian/tmp/usr/lib
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        install -m 644 lib/* shlib/*.so.$(NCBI_VERSION) debian/tmp/usr/lib
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        for x in ncbiacc ncbiCacc netentr; do \
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# Seems to be a functional version of sort(1) with no special features
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# (but lacking some features of GNU sort)
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        rm -f debian/tmp/usr/bin/ncbisort
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# Not too useful, and conflicts with hmmer
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        rm -f debian/tmp/usr/bin/getseq
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# Obsolete
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        rm -f debian/tmp/usr/bin/cdscan
 
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        rm -f debian/tmp/usr/bin/entrcmd
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#       install -d debian/tmp/usr/lib/cgi-bin
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#       mv debian/tmp/usr/bin/blast.REAL debian/tmp/usr/lib/cgi-bin
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        rm -f debian/tmp/usr/bin/blast.REAL
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        mv debian/tmp/usr/bin/Cn3D debian/tmp/usr/bin/Cn3D-3.0
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#       mv debian/tmp/usr/bin/fmerge debian/tmp/usr/bin/fastamerge
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        mv debian/tmp/usr/bin/blast debian/tmp/usr/bin/blast2
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        dh_install           -a
 
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        dh_installchangelogs -a -k README
 
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        dh_installdocs       -a -X.svn
 
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        dh_link              -a
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        debian/makemenu debian/ncbi-tools-x11.install
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        debian/makemenu -v debian/ncbi-tools-bin.install
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        debian/makemenu -v debian/libncbi6-dev.install
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        debian/makemenu -v debian/blast2.install
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binary-install/blast2::
206
 
        install -d $(pkgroot)/usr/share/man/man1
 
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        install -m 644 config/README \
 
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            debian/libncbi6/usr/share/doc/libncbi6/README.config
 
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        install -m 644 network/nsclilib/readme \
 
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            debian/libncbi6/usr/share/doc/libncbi6/README.net-cfg
 
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        install -m 644 doc/fa2htgs/README \
 
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            debian/ncbi-tools-bin/usr/share/doc/ncbi-tools-bin/README.fa2htgs
 
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        install -m 644 sequin/README \
 
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            debian/ncbi-tools-x11/usr/share/doc/ncbi-tools-x11/README.sequin
 
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        debian/installman blast2
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        debian/installman blast2 blast
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binary-install/libncbi6::
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#       install -d $(docdir)
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        install -m 644 config/README           $(docdir)/README.config
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        install -m 644 network/nsclilib/readme $(docdir)/README.net-cfg
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binary-install/ncbi-tools-bin::
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#       install -d $(docdir)
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        install -m 644 doc/fa2htgs/README $(docdir)/README.fa2htgs
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binary-install/ncbi-tools-x11::
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#       install -d $(docdir)
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        install -m 644 sequin/README $(docdir)/README.sequin
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$(patsubst %,binary-post-install/%,$(DEB_PACKAGES)) :: binary-post-install/%:
223
 
        test ! -d $(pkgroot)/usr/bin  ||  debian/installman $(cdbs_curpkg)
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        if test -f debian/$(cdbs_curpkg).override; then \
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            dir=$(pkgroot)/usr/share/lintian/overrides && \
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            install -d $$dir && \
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            install -m 644 debian/$(cdbs_curpkg).override \
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                $$dir/$(cdbs_curpkg); \
229
 
        fi
230
 
 
231
 
common-binary-predeb-arch:: list-missing
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# Also make sure there aren't any overlaps...
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        -for p in $(DEB_PACKAGES); do find debian/$$p/[^D]* -type f; done | \
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            cut -d/ -f3- | sort | uniq -c -d
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$(ICONS): debian/%.xpm: link/mswin/%.ico
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        convert -geometry 32x32 $< $@
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binary-install/ncbi-data:: $(ICONS)
 
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        debian/installman libncbi6-dev
 
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        debian/installman ncbi-tools-bin
 
200
        debian/installman ncbi-tools-x11
 
201
        dh install -a --remaining
 
202
        touch $@
 
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204
icon_in = link/mswin/ncbilogo.ico
 
205
hi = debian/ncbi-data/usr/share/icons/hicolor
 
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lo = debian/ncbi-data/usr/share/icons/locolor
 
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install-indep: install-indep-stamp
 
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install-indep-stamp: install-common-stamp
 
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        convert link/mswin/asntool.ico debian/asntool.xpm
 
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        icotool -x -w 32 -b 8 -o - $(icon_in) | \
 
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            convert png:- debian/ncbilogo.xpm
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        install -d debian/ncbi-data/etc/ncbi
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        install -m 644 debian/.*rc debian/ncbi-data/etc/ncbi
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        install -d debian/ncbi-data/usr/bin
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        install -m 644 data/* debian/ncbi-data/usr/share/ncbi/data
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        install -d debian/ncbi-data/usr/share/pixmaps
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        install -m 644 $(ICONS) debian/ncbi-data/usr/share/pixmaps
248
 
 
249
 
binary-makedeb-IMPL/blast2:: DEB_DH_GENCONTROL_ARGS=-- -v$(BLAST_VERSION_FULL)
 
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        for w in 16 32 48; do \
 
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            d=$${w}x$${w} && \
 
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            install -d $(lo)/$$d $(hi)/$$d && \
 
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            icotool -x -w $$w -b 4 -o $(lo)/$$d/ncbilogo.png $(icon_in) && \
 
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            icotool -x -w $$w -b 32 -o $(hi)/$$d/ncbilogo.png $(icon_in) \
 
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            || exit 1 ; \
 
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        done
 
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        debian/installman ncbi-data
 
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        dh_installchangelogs -i -k README
 
230
        dh_installdocs       -i -X.svn
 
231
        dh install           -i --remaining
 
232
        touch $@
 
233
 
 
234
install: install-arch install-indep
 
235
 
 
236
binary-arch: install-arch-stamp
 
237
        dh_makeshlibs  -a -V
 
238
        dh_strip       -plibncbi6     --dbg-package=libncbi6-dbg
 
239
        dh_strip       -plibvibrant6a --dbg-package=libvibrant6a-dbg
 
240
        dh_strip       -a -Nlibncbi6 -Nlibvibrant6a
 
241
        dh binary-arch --remaining --before dh_gencontrol
 
242
        dh_gencontrol  -pblast2 -- -v$(BLAST_VERSION_FULL)
 
243
        dh_gencontrol  -a -Nblast2
 
244
        dh binary-arch --remaining
 
245
 
 
246
binary-indep: install-indep-stamp
 
247
        dh binary-indep
 
248
 
 
249
binary: binary-arch binary-indep
 
250
 
 
251
.PHONY: build clean install-arch install-indep install
 
252
.PHONY: binary-arch binary-indep binary