From: Afif Elghraoui <afif@debian.org>
Date: Sun, 3 Sep 2017 22:51:26 +0000 (-0700)
Subject: Deal with bcftools config header
X-Git-Tag: archive/raspbian/0.22.0+ds-1+rpi1~1^2^2~176
X-Git-Url: https://dgit.raspbian.org/?a=commitdiff_plain;h=f56e88606944c82a3a3a92d7626e30b81acdcfae;p=python-pysam.git

Deal with bcftools config header
---

diff --git a/debian/patches/bcftools-config-header.patch b/debian/patches/bcftools-config-header.patch
new file mode 100644
index 0000000..21bc1ad
--- /dev/null
+++ b/debian/patches/bcftools-config-header.patch
@@ -0,0 +1,19 @@
+Description: create bcftools/config.h if it doesn't exist
+ since bcftools and samtools 1.5 are using the same build system,
+ they need to be treated the same way. Compilation fails when bcftools
+ can't find its config.h.
+Author: Afif Elghraoui <afif@debian.org>
+Forwarded: https://github.com/pysam-developers/pysam/pull/533
+Last-Update: 2017-09-03
+--- python-pysam.orig/setup.py
++++ python-pysam/setup.py
+@@ -134,7 +134,8 @@
+ package_dirs = {'pysam': 'pysam',
+                 'pysam.include.samtools': 'samtools',
+                 'pysam.include.bcftools': 'bcftools'}
+-config_headers = ["samtools/config.h"]
++config_headers = ["samtools/config.h",
++                  "bcftools/config.h"]
+ 
+ from cy_build import CyExtension as Extension, cy_build_ext as build_ext
+ 
diff --git a/debian/patches/series b/debian/patches/series
new file mode 100644
index 0000000..336b8e8
--- /dev/null
+++ b/debian/patches/series
@@ -0,0 +1 @@
+bcftools-config-header.patch
diff --git a/debian/rules b/debian/rules
index 8f998dd..d062880 100755
--- a/debian/rules
+++ b/debian/rules
@@ -44,7 +44,8 @@ override_dh_auto_clean:
 		pysam/config.py \
 		pysam/config.h \
 		pysam/lib*.c \
-		samtools/config.h
+		samtools/config.h \
+		bcftools/config.h
 	rm -rf pysam.egg-info
 
 .PHONY: pysam_data.% cbcf_data.%