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authorFrederick Muriuki Muriithi2021-11-01 07:09:26 +0300
committerBonfaceKilz2021-11-04 12:45:57 +0300
commitff23701bbfd90799f04fdf21c482f113bb408e34 (patch)
tree333f0def96018bfa3a315f22d24cea267a9da013 /gn3
parent4a6be7e1b6514f3c7db8c672970b27e27ecde305 (diff)
downloadgenenetwork3-ff23701bbfd90799f04fdf21c482f113bb408e34.tar.gz
Parse single line from CSV file
Issue:
https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi

* gn3/data_helpers.py: New function (parse_csv_line)
* tests/unit/test_data_helpers.py: Add tests for new function (parse_csv_line)

  Add a function to parse a single line from a CSV file.
Diffstat (limited to 'gn3')
-rw-r--r--gn3/data_helpers.py13
1 files changed, 12 insertions, 1 deletions
diff --git a/gn3/data_helpers.py b/gn3/data_helpers.py
index f0d971e..741a885 100644
--- a/gn3/data_helpers.py
+++ b/gn3/data_helpers.py
@@ -5,7 +5,7 @@ data structures.
 
 from math import ceil
 from functools import reduce
-from typing import Any, Tuple, Sequence
+from typing import Any, Tuple, Sequence, Optional
 
 def partition_all(num: int, items: Sequence[Any]) -> Tuple[Tuple[Any, ...], ...]:
     """
@@ -23,3 +23,14 @@ def partition_all(num: int, items: Sequence[Any]) -> Tuple[Tuple[Any, ...], ...]
         tuple(items[start:stop]) for start, stop # type: ignore[has-type]
         in reduce(
             __compute_start_stop__, iterations, tuple())])
+
+def parse_csv_line(
+        line:str, delimiter: str = ",", quoting:Optional[str] = '"') -> Tuple[str, ...]:
+    """
+    Parses a line from a CSV file into a tuple of strings.
+
+    This is a migration of the `web.webqtl.utility.webqtlUtil.readLineCSV`
+    function in GeneNetwork1.
+    """
+    return tuple(
+        col.strip("{} \t\n".format(quoting)) for col in line.split(delimiter))