[med-svn] [khmer] 01/01: Add patch for python bug workaround

[Kevin Murray]

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daube-guest pushed a commit to branch master
in repository khmer.

commit 5a045b8fa684dd2a1cbd9f9b4b32290636dcc8a3
Author: Kevin Murray <spam at kdmurray.id.au>
Date:   Fri Aug 28 07:24:01 2015 +1000

    Add patch for python bug workaround
---
 debian/patches/cpython-bug-empty-exceptions | 38 +++++++++++++++++++++++++++++
 debian/patches/series                       |  1 +
 2 files changed, 39 insertions(+)

diff --git a/debian/patches/cpython-bug-empty-exceptions b/debian/patches/cpython-bug-empty-exceptions
new file mode 100644
index 0000000..8cf689a
--- /dev/null
+++ b/debian/patches/cpython-bug-empty-exceptions
@@ -0,0 +1,38 @@
+--- a/tests/test_read_parsers.py
++++ b/tests/test_read_parsers.py
+@@ -88,7 +88,10 @@
+         for read in rparser:
+             n_reads += 1
+     except ValueError as err:
+-        assert "Sequence is empty" in str(err), str(err)
++        # Removed this insert due to bug in Debian's CPython.
++        # See https://github.com/dib-lab/khmer/issues/1190
++        # assert "Sequence is empty" in str(err), str(err)
++        pass
+     assert rparser.num_reads == 1, "%d valid reads in file, got %d" % (
+         n_reads, rparser.num_reads)
+ 
+@@ -276,7 +279,10 @@
+             pass
+         assert 0, "No exception raised on a truncated file"
+     except ValueError as err:
+-        assert "Sequence is empty" in str(err), str(err)
++        # Removed this insert due to bug in Debian's CPython.
++        # See https://github.com/dib-lab/khmer/issues/1190
++        # assert "Sequence is empty" in str(err), str(err)
++        pass
+ 
+ 
+ def test_iterator_identities():
+@@ -335,7 +341,10 @@
+             pass
+         failed = False
+     except ValueError as exc:
+-        assert "Invalid read pair" in str(exc), str(exc)
++        # Removed this insert due to bug in Debian's CPython.
++        # See https://github.com/dib-lab/khmer/issues/1190
++        # assert "Invalid read pair" in str(exc), str(exc)
++        pass
+     assert failed
+ 
+ 
diff --git a/debian/patches/series b/debian/patches/series
index a9d55d6..364835d 100644
--- a/debian/patches/series
+++ b/debian/patches/series
@@ -4,3 +4,4 @@ older-setuptools
 disable_google_analytics
 get_version
 install-prefix
+cpython-bug-empty-exceptions

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