Merge branch 'main' into feature/add_rqtl_pairscan

1 files changed, 61 insertions, 0 deletions

diff --git a/tests/unit/test_data_helpers.py b/tests/unit/test_data_helpers.py
new file mode 100644
index 0000000..39aea45
--- /dev/null
+++ b/tests/unit/test_data_helpers.py
@@ -0,0 +1,61 @@
+"""
+Test functions in gn3.data_helpers
+"""
+
+from unittest import TestCase
+
+from gn3.data_helpers import partition_all, parse_csv_line
+
+class TestDataHelpers(TestCase):
+    """
+    Test functions in gn3.data_helpers
+    """
+
+    def test_partition_all(self):
+        """
+        Test that `gn3.data_helpers.partition_all` partitions sequences as expected.
+
+        Given:
+            - `num`: The number of items per partition
+            - `items`: A sequence of items
+        When:
+            - The arguments above are passed to the `gn3.data_helpers.partition_all`
+        Then:
+            - Return a new sequence with partitions, each of which has `num`
+              items in the same order as those in `items`, save for the last
+              partition which might have fewer items than `num`.
+        """
+        for count, items, expected in (
+                (1, [0, 1, 2, 3], ((0,), (1,), (2,), (3,))),
+                (3, (0, 1, 2, 3, 4, 5, 6, 7, 8, 9),
+                 ((0, 1, 2), (3, 4, 5), (6, 7, 8), (9, ))),
+                (4, [0, 1, 2, 3, 4, 5, 6, 7, 8, 9],
+                 ((0, 1, 2, 3), (4, 5, 6, 7), (8, 9))),
+                (13, [0, 1, 2, 3, 4, 5, 6, 7, 8, 9],
+                 ((0, 1, 2, 3, 4, 5, 6, 7, 8, 9), ))):
+            with self.subTest(n=count, items=items):
+                self.assertEqual(partition_all(count, items), expected)
+
+    def test_parse_csv_line(self):
+        """
+        Test parsing a single line from a CSV file
+
+        Given:
+            - `line`: a line read from a csv file
+            - `delimiter`: the expected delimiter in the csv file
+            - `quoting`: the quoting enclosing each column in the csv file
+        When:
+            - `line` is parsed with the `parse_csv_file` with the given
+               parameters
+        Then:
+            - return a tuple of the columns in the CSV file, without the
+              delimiter and quoting
+        """
+        for line, delimiter, quoting, expected in (
+                ('"this","is","a","test"', ",", '"', ("this", "is", "a", "test")),
+                ('"this","is","a","test"', ",", None, ('"this"', '"is"', '"a"', '"test"'))):
+            with self.subTest(line=line, delimiter=delimiter, quoting=quoting):
+                self.assertEqual(
+                    parse_csv_line(
+                        line=line, delimiter=delimiter, quoting=quoting),
+                    expected)