Skip FastaVariant tests on pypy.

mdshw5 · Apr 2, 2015 · 9ccc470 · 9ccc470
1 parent 90c3bbc
commit 9ccc470
Showing 1 changed file with 14 additions and 3 deletions.
diff --git a/tests/test_FastaVariant.py b/tests/test_FastaVariant.py
@@ -1,9 +1,10 @@
 import os
 from pyfaidx import FastaVariant, Fasta
-from itertools import chain
 from unittest import TestCase
-from subprocess import call
-import shlex
+from nose.plugins.skip import SkipTest
+import sys
+pypy = '__pypy__' in sys.builtin_module_names
+
 
 path = os.path.dirname(__file__)
 os.chdir(path)
@@ -17,25 +18,35 @@ def tearDown(self):
             pass  # some tests may delete this file
 
     def test_fetch_variant(self):
+        if not pypy:
+            raise SkipTest
         fasta = FastaVariant('data/chr22.fasta', 'data/chr22.vcf.gz', hom=True, het=True, as_raw=True)
         assert fasta['22'][32330458:32330462] == 'CAGG'  # het
         assert fasta['22'][32352282:32352286] == 'CAGC'  # hom
 
     def test_fetch_hom_variant(self):
+        if not pypy:
+            raise SkipTest
         fasta = FastaVariant('data/chr22.fasta', 'data/chr22.vcf.gz', hom=True, het=False, as_raw=True)
         assert fasta['22'][32330458:32330462] == 'CGGG'  # het
         assert fasta['22'][32352282:32352286] == 'CAGC'  # hom
 
     def test_fetch_het_variant(self):
+        if not pypy:
+            raise SkipTest
         fasta = FastaVariant('data/chr22.fasta', 'data/chr22.vcf.gz', hom=False, het=True, as_raw=True)
         assert fasta['22'][32330458:32330462] == 'CAGG'  # het
         assert fasta['22'][32352282:32352286] == 'CGGC'  # hom
 
     def test_all_pos(self):
+        if not pypy:
+            raise SkipTest
         fasta = FastaVariant('data/chr22.fasta', 'data/chr22.vcf.gz', hom=True, het=True, as_raw=True)
         assert fasta['22'].variant_sites == (16042793, 21833121, 29153196, 29187373, 29187448, 29194610, 29821295, 29821332, 29993842, 32330460, 32352284)
 
     def test_all_diff(self):
+        if not pypy:
+            raise SkipTest
         fasta = FastaVariant('data/chr22.fasta', 'data/chr22.vcf.gz', hom=True, het=True, as_raw=True)
         ref = Fasta('data/chr22.fasta', as_raw=True)
         assert all(ref['22'][pos-1] != fasta['22'][pos-1] for pos in fasta['22'].variant_sites)