[med-svn] [Git][med-team/allelecount][master] 3 commits: Follow hint by gregor hermann to use dh-make-perl --intrusive

[Andreas Tille]

Andreas Tille pushed to branch master at Debian Med / allelecount


Commits:
9fc2bd2f by Andreas Tille at 2020-05-11T23:04:08+02:00
Follow hint by gregor hermann to use dh-make-perl --intrusive

- - - - -
71cd8a67 by Andreas Tille at 2020-05-11T23:12:46+02:00
Hardening

- - - - -
9d13d8f1 by Andreas Tille at 2020-05-11T23:13:37+02:00
Add lintian-overrides

- - - - -


3 changed files:

- debian/control
- + debian/lintian-overrides
- debian/rules


Changes:

=====================================
debian/control
=====================================
@@ -6,13 +6,15 @@ Priority: optional
 Build-Depends: debhelper-compat (= 12),
                libhts-dev,
                libbz2-dev,
-               libconst-fast-perl,
-               libdevel-cover-perl,
-               libfile-slurp-perl,
-               libfile-which-perl,
-               libipc-system-simple-perl,
-               libpod-coverage-perl,
-               libtest-fatal-perl
+Build-Depends-Indep: libconst-fast-perl <!nocheck>,
+                     libdevel-cover-perl <!nocheck>,
+                     libfile-slurp-perl <!nocheck>,
+                     libfile-which-perl <!nocheck>,
+                     libipc-system-simple-perl <!nocheck>,
+                     libpod-coverage-perl <!nocheck>,
+                     libtest-fatal-perl (>= 0.013) <!nocheck>,
+                     libtry-tiny-perl <!nocheck>,
+                     perl
 Standards-Version: 4.5.0
 Vcs-Browser: https://salsa.debian.org/med-team/allelecount
 Vcs-Git: https://salsa.debian.org/med-team/allelecount.git
@@ -21,7 +23,16 @@ Homepage: https://github.com/cancerit/alleleCount
 Package: allelecount
 Architecture: any
 Depends: ${shlibs:Depends},
-         ${misc:Depends}
+         ${misc:Depends},
+         ${perl:Depends},
+         libconst-fast-perl,
+         libdevel-cover-perl,
+         libfile-slurp-perl,
+         libfile-which-perl,
+         libipc-system-simple-perl,
+         libpod-coverage-perl,
+         libtest-fatal-perl (>= 0.013),
+         libtry-tiny-perl
 Description: NGS copy number algorithms
  Support code for NGS copy number algorithms. Takes a file of locations
  and a [cr|b]am file and generates a count of coverage of each allele


=====================================
debian/lintian-overrides
=====================================
@@ -0,0 +1,2 @@
+# see https://lists.debian.org/debian-med/2018/06/msg00043.html
+allelecount: script-with-language-extension usr/bin/*.*


=====================================
debian/rules
=====================================
@@ -4,36 +4,31 @@
 export LC_ALL=C.UTF-8
 
 include /usr/share/dpkg/default.mk
-# this provides:
-# DEB_SOURCE: the source package name
-# DEB_VERSION: the full version of the package (epoch + upstream vers. + revision)
-# DEB_VERSION_EPOCH_UPSTREAM: the package's version without the Debian revision
-# DEB_VERSION_UPSTREAM_REVISION: the package's version without the Debian epoch
-# DEB_VERSION_UPSTREAM: the package's upstream version
-# DEB_DISTRIBUTION: the distribution(s) listed in the current entry of debian/changelog
-# SOURCE_DATE_EPOCH: the source release date as seconds since the epoch, as
-#                    specified by <https://reproducible-builds.org/specs/source-date-epoch/>
 
 # for hardening you might like to uncomment this:
-# export DEB_BUILD_MAINT_OPTIONS=hardening=+all
+export DEB_BUILD_MAINT_OPTIONS=hardening=+all
 
 %:
 	dh $@ --sourcedirectory=c
 
+override_dh_auto_clean:
+	dh_auto_clean --sourcedirectory=c
+	dh_auto_clean --sourcedirectory=perl
+
+override_dh_auto_configure:
+	dh_auto_configure --sourcedirectory=c
+	dh_auto_configure --sourcedirectory=perl
+
 override_dh_auto_build:
-	dh_auto_build
-	cd perl && perl Makefile.PL INSTALL_BASE=$(CURDIR)/debian/$(DEB_SOURCE)/usr/
-	
+	dh_auto_build --sourcedirectory=c
+	dh_auto_build --sourcedirectory=perl
+
 override_dh_auto_test:
-	dh_auto_test
-	cd perl && make test
+ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
+	dh_auto_test --sourcedirectory=c
+	dh_auto_test --sourcedirectory=perl
+endif
 
 override_dh_auto_install:
-	dh_auto_install
-	cd perl && make install
-
-### When overriding auto_test make sure DEB_BUILD_OPTIONS will be respected
-#override_dh_auto_test:
-#ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
-#	do_stuff_for_testing
-#endif
+	dh_auto_install --sourcedirectory=c
+	dh_auto_install --sourcedirectory=perl



View it on GitLab: https://salsa.debian.org/med-team/allelecount/-/compare/dd5a3a8607011c87b0db0543813c75d32d1e630b...9d13d8f17db49f754b389b94d8e3a7ec3cf70b80

-- 
View it on GitLab: https://salsa.debian.org/med-team/allelecount/-/compare/dd5a3a8607011c87b0db0543813c75d32d1e630b...9d13d8f17db49f754b389b94d8e3a7ec3cf70b80
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