[med-svn] [seqan] 04/14: Symlink to binaries only if these are part of the binary distribution
Andreas Tille
tille at debian.org
Wed Jan 20 10:39:39 UTC 2016
This is an automated email from the git hooks/post-receive script.
tille pushed a commit to branch master
in repository seqan.
commit f36ba41118b33e69b68c63bb2e508b37162a385b
Author: Andreas Tille <tille at debian.org>
Date: Tue Jan 19 09:14:25 2016 +0100
Symlink to binaries only if these are part of the binary distribution
---
debian/changelog | 1 +
debian/rules | 31 ++++++++++++++++++++++++-------
debian/seqan-apps.links | 21 ---------------------
3 files changed, 25 insertions(+), 28 deletions(-)
diff --git a/debian/changelog b/debian/changelog
index 2a639c2..449f39e 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -16,6 +16,7 @@ seqan (2.0.1+dfsg-1) UNRELEASED; urgency=medium
else and should be moved to a separate package
* New package seqan-doc
* Moved to Git
+ * Symlink to binaries only if these are part of the binary distribution
-- Andreas Tille <tille at debian.org> Mon, 18 Jan 2016 15:00:43 +0100
diff --git a/debian/rules b/debian/rules
index 4520c6c..0c9e5fb 100755
--- a/debian/rules
+++ b/debian/rules
@@ -22,6 +22,9 @@ ifneq (,$(filter $(DEB_BUILD_ARCH),mips mipsel))
export CXXFLAGS:=$(shell dpkg-buildflags --get CXXFLAGS | sed 's/-O[1-9]//') -O0 -mxgot
endif
+pkgapps=seqan-apps
+pkgdev=seqan-dev
+
%:
dh $@ --parallel
@@ -34,14 +37,14 @@ override_dh_install:
# /usr/bin/join is part of coreutils package: Avoid name conflict by renaming it to seqan-join
# This solution is withdrawn in favour of just providing a set of binaries according to upstream
# in /usr/bin (via symlink) while others go to /usr/lib/seqan/bin (see README.Debian)
- # mv $(CURDIR)/debian/seqan-apps/usr/bin/join $(CURDIR)/debian/seqan-apps/usr/bin/seqan-join
+ # mv $(CURDIR)/debian/$(pkgapps)/usr/bin/join $(CURDIR)/debian/$(pkgapps)/usr/bin/seqan-join
#
# Formerly binaries were installed into usr/lib/seqan/bin/
# and only some of them were made available in /usr/bin via dh_link
# Since there is no obvious reason for this neither is there any
# documentation that explains the motivation this is commented here.
#for APP in `find $(CURDIR)/obj*/apps -mindepth 1 -maxdepth 1 -executable -type f` ; do \
- # cp -a $$APP $(CURDIR)/debian/seqan-apps/usr/lib/seqan/bin/ ; done
+ # cp -a $$APP $(CURDIR)/debian/$(pkgapps)/usr/lib/seqan/bin/ ; done
# ------------------------------------------------------------------
# Formerly readmes were named README.app. It seems more consistent
# to keep upstream documentation layout which in addition contains
@@ -49,14 +52,14 @@ override_dh_install:
#for APP in `find apps -name README` ; do \
# app=`echo $$APP | sed 's?.*apps/\(.\+\)/README?\1?'` ; \
# echo $$app ; \
- # cp -a $$APP $(CURDIR)/debian/seqan-apps/usr/share/doc/seqan-apps/README.$$app ; \
+ # cp -a $$APP $(CURDIR)/debian/$(pkgapps)/usr/share/doc/$(pkgapps)/README.$$app ; \
#done
# ------------------------------------------------------------------
# Delete additional LICENSE files
- find $(CURDIR)/debian/seqan-apps -type f -name LICENSE -delete
- if [ -d $(CURDIR)/debian/seqan-dev ] ; then \
- find $(CURDIR)/debian/seqan-dev -type f -name LICENSE -delete ; \
- find $(CURDIR)/debian/seqan-dev -type f -name "*.pyc" -delete ; \
+ find $(CURDIR)/debian/$(pkgapps) -type f -name LICENSE -delete
+ if [ -d $(CURDIR)/debian/$(pkgdev) ] ; then \
+ find $(CURDIR)/debian/$(pkgdev) -type f -name LICENSE -delete ; \
+ find $(CURDIR)/debian/$(pkgdev) -type f -name "*.pyc" -delete ; \
fi
override_dh_auto_clean:
@@ -71,10 +74,24 @@ override_dh_auto_clean:
override_dh_link:
dh_link
+ for bin in `ls $(CURDIR)/$(pkgapps)/usr/lib/seqan/bin` ; do \
+ if [ -x $(CURDIR)/$(pkgapps)/usr/lib/seqan/bin/$${bin} ] ; then \
+ ln -s ../lib/seqan/bin/$${bin} $(CURDIR)/$(pkgapps)/usr/bin/$${bin} ; \
+ fi ; \
+ if echo $${bin} | grep -q '\.sh$' ; then \
+ ln -s ../lib/seqan/bin/$${bin} $(CURDIR)/$(pkgapps)/usr/bin/`basename $${bin} .sh` ; \
+ fi ; \
+ done
# we generate only those manpages where binaries are linked to /usr/bin
# since dh_link is executed after dh_installmanpages this is done here
$(CURDIR)/debian/generate_manpages
+override_dh_fixperms:
+ dh_fixperms
+ for bin in `ls $(CURDIR)/$(pkgapps)/usr/lib/seqan/bin/*.sh` ; do \
+ chmod +x $(CURDIR)/$(pkgapps)/usr/lib/seqan/bin/$${bin} ; \
+ done
+
override_dh_auto_test:
# Run test suite only on powerfull architectures (amd64) at build time
ifneq (,$(filter $(DEB_HOST_ARCH),amd64 kfreebsd-amd64))
diff --git a/debian/seqan-apps.links b/debian/seqan-apps.links
deleted file mode 100644
index bb7fb5b..0000000
--- a/debian/seqan-apps.links
+++ /dev/null
@@ -1,21 +0,0 @@
-usr/lib/seqan/bin/alf usr/bin/alf
-usr/lib/seqan/bin/gustaf usr/bin/gustaf
-usr/lib/seqan/bin/insegt usr/bin/insegt
-usr/lib/seqan/bin/masai_indexer usr/bin/masai_indexer
-usr/lib/seqan/bin/masai_mapper usr/bin/masai_mapper
-usr/lib/seqan/bin/masai_output_pe usr/bin/masai_output_pe
-usr/lib/seqan/bin/masai_output_se usr/bin/masai_output_se
-usr/lib/seqan/bin/mason usr/bin/seqan_mason
-usr/lib/seqan/bin/micro_razers usr/bin/micro_razers
-usr/lib/seqan/bin/pair_align usr/bin/pair_align
-usr/lib/seqan/bin/rabema_build_gold_standard usr/bin/rabema_build_gold_standard
-usr/lib/seqan/bin/rabema_evaluate usr/bin/rabema_evaluate
-usr/lib/seqan/bin/rabema_prepare_sam usr/bin/rabema_prepare_sam
-usr/lib/seqan/bin/razers usr/bin/razers
-usr/lib/seqan/bin/razers3 usr/bin/razers3
-usr/lib/seqan/bin/sak usr/bin/sak
-usr/lib/seqan/bin/seqan_tcoffee usr/bin/seqan_tcoffee
-usr/lib/seqan/bin/snp_store usr/bin/snp_store
-usr/lib/seqan/bin/splazers usr/bin/splazers
-usr/lib/seqan/bin/stellar usr/bin/stellar
-usr/lib/seqan/bin/tree_recon usr/bin/tree_recon
--
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