[med-svn] [python-biopython] 02/02: Exclude phyml test for the moment

[Andreas Tille]

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tille pushed a commit to branch master
in repository python-biopython.

commit 54bf6574ff5078762d7b8a1f3295db678b2f19f8
Author: Andreas Tille <tille at debian.org>
Date:   Wed Mar 9 15:25:31 2016 +0100

    Exclude phyml test for the moment
---
 debian/README.source | 9 ++++++++-
 debian/changelog     | 2 ++
 debian/rules         | 6 ++++--
 3 files changed, 14 insertions(+), 3 deletions(-)

diff --git a/debian/README.source b/debian/README.source
index 33ecf1c..c663daa 100644
--- a/debian/README.source
+++ b/debian/README.source
@@ -8,6 +8,7 @@ tests that can not be run:
   3. non-free tools
   4. tools that are not packaged for Debian yet
   5. packages only available on some architectures are only tested there
+  6. packages failing tests for some other reasons (phyml)
 
 The according tests are moved away from the test directory in the
 debian/rules file.  Please look there if you want to know what tests
@@ -62,11 +63,17 @@ The tools which are not packaged yet (item 4.) are:
              But it does not need to be explicitly excluded since the
              test suite itself checks the existence
 
-Finally there is a package only available on amd64 architectures:
+There is a package only available on amd64 architectures:
 
   bwa:       The package is limited to amd64 only.
 
 So the Build-Depends from bwa is only on these architectures and the
 test is consequently only run there.
 
+As described in Bug https://bugs.debian.org/813262 there is a problem
+with phyml when using recent libhmsbeagle and the test is running in a
+chroot that has no proper GPU (emulator).  So for the moment we also
+need to exclude phyml from testing.
+
+
  -- Andreas Tille <tille at debian.org>  Tue, 04 Mar 2014 11:16:02 +0100
diff --git a/debian/changelog b/debian/changelog
index f987b35..26d66b6 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -2,6 +2,8 @@ python-biopython (1.66+dfsg-2) UNRELEASED; urgency=medium
 
   * Packaging moved from SVN to Git
   * Bumped Standards-Version
+  * Exclude phyml test for the moment
+    Closes: #813262
 
  -- Andreas Tille <tille at debian.org>  Wed, 09 Mar 2016 12:52:12 +0100
 
diff --git a/debian/rules b/debian/rules
index e1ecc8b..8e30a3e 100755
--- a/debian/rules
+++ b/debian/rules
@@ -34,8 +34,10 @@ endif
 # This would not trigger a failure but bloats the build log with irrelevant noise
 EXCLUDEDATABASE=BioSQL_MySQLdb BioSQL_psycopg2
 
-# No need to exclude any tests any more
-EXCLUDEFAILINGTESTS=
+# With recent phyml we get:
+# ApplicationError: Non-zero return code 255 from 'phyml -i Phylip/interlaced2.phy -d aa', message 'beignet-opencl-icd: no supported GPU found, this is probably the wrong opencl-icd package for this hardware'
+# See https://bugs.debian.org/813262
+EXCLUDEFAILINGTESTS=phyml_tool
 
 # FIXME: Currently it is not sure for what architecture samtools will be available
 #        to anable a smooth migration to testing the build-dependency will be dropped

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