From: Afif Elghraoui <afif@ghraoui.name>
Date: Thu, 10 Mar 2016 06:25:29 +0000 (-0800)
Subject: Completely fix rpath issue
X-Git-Tag: archive/raspbian/0.22.0+ds-1+rpi1~1^2^2~233
X-Git-Url: https://dgit.raspbian.org/?a=commitdiff_plain;h=c47196e7939dc762ee25187d47124a9eeeb81716;p=python-pysam.git

Completely fix rpath issue
---

diff --git a/debian/TODO b/debian/TODO
index 681828c..83ce291 100644
--- a/debian/TODO
+++ b/debian/TODO
@@ -1,7 +1,3 @@
-* Disable rpath setting during build
-   Cython is producing -R flags to set rpath (see it by grepping the build log).
-   This should be stopped and checked to make sure that tests still pass.
-
 * Fix tests requiring network access
    All tests should be passing now.
    The ones that fail are failing because of network access issues.
diff --git a/debian/patches/rpath.patch b/debian/patches/rpath.patch
index b6fb0c8..61e3bea 100644
--- a/debian/patches/rpath.patch
+++ b/debian/patches/rpath.patch
@@ -20,3 +20,13 @@ Last-Update: 2016-03-05
 -            ext.extra_link_args += ['-Wl,-rpath,$ORIGIN']
                                      
          build_ext.build_extension(self, ext)
+--- python-pysam.orig/setup.py
++++ python-pysam/setup.py
+@@ -348,7 +348,6 @@
+     shared_htslib_sources +
+     os_c_files,
+     library_dirs=htslib_library_dirs,
+-    runtime_library_dirs=htslib_library_dirs,
+     include_dirs=["pysam", "."] + include_os + htslib_include_dirs,
+     libraries=external_htslib_libraries,
+     language="c",