BUGFIX: truncating gene names. Version bump to 1.1.11

alegiac95 · Feb 7, 2023 · 7ccc56d · 7ccc56d
1 parent aa08ace
commit 7ccc56d
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Showing 3 changed files with 5 additions and 2 deletions.
diff --git a/imaging_transcriptomics/__init__.py b/imaging_transcriptomics/__init__.py
@@ -1,5 +1,5 @@
 
-__version__ = "1.1.10"
+__version__ = "1.1.11"
 
 from . import inputs
 from . import reporting

diff --git a/imaging_transcriptomics/inputs.py b/imaging_transcriptomics/inputs.py
@@ -98,7 +98,9 @@ def load_gene_labels():
     genes_labels_path = (
         Path(__file__).resolve().parent / "data" / "gene_expression_labels.txt"
     )
-    return pd.read_fwf(genes_labels_path, header=None).to_numpy()
+    # return pd.read_fwf(genes_labels_path, header=None).to_numpy()
+    return np.loadtxt(str(genes_labels_path), dtype="U",
+                      delimiter="\n").reshape(-1, 1)
 
 
 def get_geneset(gene_set: str):

diff --git a/imaging_transcriptomics/tests/inputs_test.py b/imaging_transcriptomics/tests/inputs_test.py
@@ -81,6 +81,7 @@ def test_gene_labels_load():
     assert labels[1635] == "C6orf106"
     assert "SLC7A10" in labels
     assert "audhd49b" not in labels
+    assert "LOC102723968" in labels
 
 
 # GENESET FUNCTION TESTS