From df4dda0d7da70d61cc511947c85d331ce77bc451 Mon Sep 17 00:00:00 2001
From: Andreas Tille <tille@debian.org>
Date: Tue, 11 Feb 2014 11:36:54 +0100
Subject: [PATCH] Enable proper cleaning by preserving original Cython created
 files.

---
 debian/python-pysam.install |  1 +
 debian/rules                | 21 +++++++++++++++++----
 2 files changed, 18 insertions(+), 4 deletions(-)
 create mode 100644 debian/python-pysam.install

diff --git a/debian/python-pysam.install b/debian/python-pysam.install
new file mode 100644
index 0000000..13f83a7
--- /dev/null
+++ b/debian/python-pysam.install
@@ -0,0 +1 @@
+/usr/lib/python2.*/*
diff --git a/debian/rules b/debian/rules
index a1bc875..3c444f4 100755
--- a/debian/rules
+++ b/debian/rules
@@ -5,6 +5,23 @@ pybuilddir := $(CURDIR)/build/lib.$(shell dpkg-architecture -qDEB_BUILD_ARCH_OS)
 %:
 	dh $@ --with python2
 
+# Cython is recreating some c-files.  To enable building twice in a row these
+# will be saved in advance and restored afterwards
+debian/savefiles:
+	mkdir -p debian/savefiles
+	cp -a `grep -l "Generated by Cython" pysam/*.c` debian/savefiles
+
+override_dh_clean:
+	dh_clean
+	# restore cython generated files
+	if [ -d debian/savefiles ] ; then \
+	    mv debian/savefiles/* pysam ; \
+	    rm -rf debian/savefiles ; \
+	fi
+
+override_dh_auto_build: debian/savefiles
+	dh_auto_build
+
 override_dh_auto_test:
 	dh_auto_test
 	chmod a+x tests/pysam_test_offline.py
@@ -15,10 +32,6 @@ ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))
 	done
 endif
 
-override_dh_install:
-	echo '/usr/lib/python2.*/*' >> debian/python-pysam.install
-	dh_install
-
 override_dh_auto_clean:
 	dh_auto_clean
 	cd tests; make clean
-- 
2.30.2