cyvcf2

tskit-dev · Nov 7, 2022 · ae2b087 · ae2b087
1 parent bcdb5ea
commit ae2b087
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Showing 3 changed files with 10 additions and 5 deletions.
diff --git a/requirements/CI-tests-conda/requirements.txt b/requirements/CI-tests-conda/requirements.txt
@@ -2,4 +2,7 @@ h5py==3.6.0
 lmdb==0.9.29
 msprime==1.1.1
 numcodecs==0.9.1
+# Held at 1.21.6 for sgkit compat
+numpy==1.21.6
 python-lmdb==1.3.0
+
diff --git a/requirements/CI-tests-pip/requirements.txt b/requirements/CI-tests-pip/requirements.txt
@@ -9,11 +9,8 @@ seaborn==0.11.2
 sortedcontainers==2.4.0
 tqdm==4.64.0
 tskit==0.5.3
-
-# Held at 1.21.6 for sgkit compat
-numpy==1.21.6
 # Held at 1.3.5 for sgkit compat
 pandas==1.3.5
 # Held at 2.10.3 for sgkit compat
 zarr==2.10.3
-sgkit[vcf]==0.5.0
+sgkit[vcf]==0.5.0;platform_system!="Windows"
diff --git a/tests/test_sgkit.py b/tests/test_sgkit.py
@@ -19,14 +19,19 @@
 """
 Tests for the data files.
 """
+import sys
+
 import msprime
 import numpy as np
-import sgkit.io.vcf
+import pytest
 
 import tsinfer
 
 
+@pytest.mark.skipif(sys.platform == "win32", reason="No cyvcf2 on windows")
 def test_sgkit_dataset(tmp_path):
+    import sgkit.io.vcf
+
     ts = msprime.sim_ancestry(
         samples=50,
         ploidy=3,