Use the factor class to extract codes for seqnames (#6)

ArtifactDB · Feb 1, 2025 · 37df6f2 · 37df6f2
1 parent 596037e
commit 37df6f2
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Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/setup.cfg b/setup.cfg
@@ -50,7 +50,7 @@ python_requires = >=3.9
 install_requires =
     importlib-metadata; python_version<"3.8"
     dolomite-base>=0.4.2
-    genomicranges>=0.4.10
+    genomicranges>=0.6.1
     biocframe>=0.5.8
     h5py
 

diff --git a/src/dolomite_ranges/save_genomic_ranges.py b/src/dolomite_ranges/save_genomic_ranges.py
@@ -47,9 +47,9 @@ def save_genomic_ranges(
     with h5py.File(os.path.join(path, "ranges.h5"), "w") as handle:
         ghandle = handle.create_group("genomic_ranges")
 
-        _seqnames, _ = x.get_seqnames(as_type="factor")
+        _seqnames = x.get_seqnames(as_type="factor")
         dl.write_integer_vector_to_hdf5(
-            ghandle, name="sequence", h5type="u4", x=_seqnames
+            ghandle, name="sequence", h5type="u4", x=_seqnames.get_codes()
         )
 
         _ranges = x.get_ranges()