From: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Date: Mon, 19 Feb 2018 10:11:17 +0000 (+0000)
Subject: skip_test_needing_missing_data
X-Git-Tag: archive/raspbian/0.14+ds-2+rpi1^2~1
X-Git-Url: https://dgit.raspbian.org/?a=commitdiff_plain;h=c6115e394f642cf904a38e81bf1bf6c1dbc194c6;p=python-pysam.git

skip_test_needing_missing_data


Gbp-Pq: Name skip_test_needing_missing_data.patch
---

diff --git a/tests/AlignmentFile_test.py b/tests/AlignmentFile_test.py
index a684fb8..e2f210a 100644
--- a/tests/AlignmentFile_test.py
+++ b/tests/AlignmentFile_test.py
@@ -1361,12 +1361,7 @@ class TestEmptyHeader(unittest.TestCase):
                                              'example_empty_header.bam'))
         self.assertEqual(s.header.to_dict(), {'SQ': [{'LN': 1000, 'SN': 'chr1'}]})
 
-    def test_bam_without_seq_in_header(self):
-        s = pysam.AlignmentFile(os.path.join(BAM_DATADIR, "example_no_seq_in_header.bam"))
-        self.assertTrue("SQ" in s.header.to_dict())
-        self.assertTrue("@SQ" in str(s.header))
 
-        
 class TestHeaderWithProgramOptions(unittest.TestCase):
 
     '''see issue 39.'''
diff --git a/tests/pysam_data/Makefile b/tests/pysam_data/Makefile
index b48a27c..5550152 100644
--- a/tests/pysam_data/Makefile
+++ b/tests/pysam_data/Makefile
@@ -20,8 +20,7 @@ all: ex1.pileup.gz \
 	explicit_index.bam explicit_index.cram \
 	faidx_empty_seq.fq.gz \
 	ex1.fa.gz ex1.fa.gz.csi \
-	ex1_csi.bam \
-	example_reverse_complement.bam
+	ex1_csi.bam
 
 # ex2.sam - as ex1.sam, but with header
 ex2.sam.gz: ex1.bam ex1.bam.bai