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|
#!/usr/bin/make -f
export DEB_BUILD_MAINT_OPTIONS = hardening=+all
export DEB_LDFLAGS_MAINT_APPEND = -Wl,--as-needed
DPKG_EXPORT_BUILDFLAGS = 1
include /usr/share/dpkg/default.mk
%:
dh $@ --with=golang
PACKAGE = ncbi-entrez-direct
LIB_DIR = /usr/lib/$(PACKAGE)
PKG_BIN_DIR = debian/$(PACKAGE)/usr/bin
MODES = address blast citmatch contact notify proxy spell
STD_WRAPPERS = $(MODES:%=bin/e%)
OTHER_WRAPPERS = ftp-cp ftp-ls transmute.sh xtract.sh
WRAPPERS = $(STD_WRAPPERS) $(OTHER_WRAPPERS:%=bin/%)
AS_IS_SCRIPTS = accn-at-a-time amino-acid-composition archive-pubmed \
between-two-genes entrez-phrase-search esample \
exclude-uid-lists expand-current fetch-pubmed \
filter-stop-words gbf2xml index-pubmed intersect-uid-lists \
join-into-groups-of phrase-search pm-* protein-neighbors \
reorder-columns skip-if-file-exists sort-uniq-count* \
stream-pubmed theme-aliases word-at-a-time xml2tbl xy-plot
BASH_SCRIPTS = index-extras
BIN_BASH_SCRIPTS = $(BASH_SCRIPTS:%=bin/%)
DL_SCRIPTS = download-ncbi-data download-pubmed download-sequence
BIN_DL_SCRIPTS = $(DL_SCRIPTS:%=bin/%)
PERL_SCRIPTS = edirutil run-ncbi-converter xml2json
BIN_PERL_SCRIPTS = $(PERL_SCRIPTS:%=bin/%)
ECOMMON_SCRIPTS = efetch efilter einfo elink epost esearch esummary
BIN_ECOMMON_SCRIPTS = $(ECOMMON_SCRIPTS:%=bin/%)
OTHER_SCRIPTS = nquire
BIN_OTHER_SCRIPTS = $(OTHER_SCRIPTS:%=bin/%)
FIX_PERL_SHEBANG = 1s,^\#!/usr/bin/env perl$$,\#!/usr/bin/perl,
FIX_BASH_SHEBANG = 1s,^\#!/bin/sh,\#!/bin/bash,
GOCODE = /usr/share/gocode
GH = github.com
GL = golang.org
GOLIBSRC_ = $(GH)/fatih/color $(GH)/gedex/inflector $(GH)/klauspost/cpuid \
$(GH)/mattn/go-colorable $(GH)/mattn/go-isatty \
$(GH)/pbnjay/memory $(GH)/rainycape/unidecode \
$(GH)/shirou/gopsutil $(GH)/surgebase/porter2 \
$(GL)/x/sys $(GL)/x/text
GOLIBSRC = $(GOLIBSRC_:%=$(GOCODE)/src/%)
export GOCACHE = $(CURDIR)/go-build
export GOPATH = $(CURDIR)/obj-$(DEB_HOST_GNU_TYPE)
GOLIBS = $(GOLIBSRC:$(GOCODE)/%=$(GOPATH)/%)
GO_APPS = rchive transmute xtract
BIN_GO_APPS = $(GO_APPS:%=bin/%)
GOVERSION := $(word 3,$(shell go version)) # go version **goX.Y.Z** OS/CPU
GO_IS_OLD := $(shell dpkg --compare-versions 0$(GOVERSION) ge 0go1.10 || echo $$?)
ifneq (,$(GO_IS_OLD))
export PATH := /usr/lib/go-1.10/bin:$(PATH)
endif
$(GOPATH)/%: /usr/share/gocode/%
mkdir -p $(dir $@)
ln -s $< $@
$(GOPATH)/src/%: debian/vendor/%
mkdir -p $(dir $@)
ln -s $(CURDIR)/$< $@
bin/edirect: edirect.pl
mkdir -p bin
sed -e '$(FIX_PERL_SHEBANG)' $< > $@
chmod +x $@
$(STD_WRAPPERS): bin/e%: bin/edirect
echo '#!/bin/sh' > $@
echo 'exec /usr/bin/edirect -$* "$$@"' >> $@
chmod +x $@
bin/ftp-cp: bin/edirect
echo '#!/bin/sh' > $@
echo 'exec /usr/bin/edirect -ftpcp "$$@"' >> $@
chmod +x $@
bin/ftp-ls: bin/edirect
echo '#!/bin/sh' > $@
echo 'exec /usr/bin/edirect -ftpls "$$@"' >> $@
chmod +x $@
bin/nquire: nquire
mkdir -p bin
sed -e 's/edirect\.pl/edirect/g; s/ --no-check-certificate / /' $< > $@
chmod +x $@
bin/%.sh: %
sed -e 's,xml2json,$(LIB_DIR)/&,; s/python/&3/; /to precompiled/q' \
$< > $@
echo 'exec $(LIB_DIR)/$< "$$@"' >> $@
chmod +x $@
$(BIN_BASH_SCRIPTS): bin/%: %
mkdir -p bin
sed -e '$(FIX_BASH_SHEBANG)' $< > $@
chmod +x $@
$(BIN_PERL_SCRIPTS): bin/%: %
mkdir -p bin
sed -e '$(FIX_PERL_SHEBANG)' $< > $@
chmod +x $@
$(BIN_DL_SCRIPTS): bin/%: %
mkdir -p bin
sed -e 's/`has-asp`/false # &/' $< > $@
chmod +x $@
$(BIN_ECOMMON_SCRIPTS): bin/%: %
mkdir -p bin
sed -e 's/edirect\.pl/edirect/g; s,"$$pth"/ec,$(LIB_DIR)/ec,g' $< > $@
chmod +x $@
$(GOPATH)/src/$(GH)/fiam/gounidecode: $(GOLIBS)
mkdir -p $(GOPATH)/src/$(GH)/fiam
ln -s ../rainycape $(GOPATH)/src/$(GH)/fiam/gounidecode
COMMON = common.go
$(BIN_GO_APPS): bin/%: %.go $(GOPATH)/src/$(GH)/fiam/gounidecode
# Always use gccgo? The resulting binary would be much smaller, but
# pull in a large shared library with few other reverse dependencies.
go build -v -gccgoflags '$(CFLAGS) $(LDFLAGS)' -o $@ $*.go $(COMMON)
override_dh_auto_configure:
mkdir -p saved
-mv go.mod go.sum saved/
override_dh_auto_build: $(WRAPPERS) $(BIN_BASH_SCRIPTS) $(BIN_DL_SCRIPTS) \
$(BIN_PERL_SCRIPTS) $(BIN_ECOMMON_SCRIPTS) \
$(BIN_OTHER_SCRIPTS) $(BIN_GO_APPS)
dh_auto_build
install $(AS_IS_SCRIPTS) bin/
mv bin/efetch bin/efetch.ncbi
mv bin/einfo bin/einfo.ncbi
install debian/efetch debian/einfo bin/
override_dh_install:
dh_install
mv $(PKG_BIN_DIR)/transmute $(PKG_BIN_DIR)/xml2json \
$(PKG_BIN_DIR)/xtract debian/$(PACKAGE)/$(LIB_DIR)/
mv $(PKG_BIN_DIR)/transmute.sh $(PKG_BIN_DIR)/transmute
mv $(PKG_BIN_DIR)/xtract.sh $(PKG_BIN_DIR)/xtract
override_dh_installexamples:
dh_installexamples
sed -i '$(FIX_PERL_SHEBANG)' debian/*/usr/share/doc/*/examples/*
override_dh_auto_clean:
dh_auto_clean
rm -rf bin $(GOCACHE) $(GOPATH)
if [ -d saved ]; then mv saved/* . && rmdir saved; fi
|
