From cad4649d19001f62ef592dedf09f3ac53744962a Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Thu, 21 Oct 2021 09:00:16 +0300
Subject: Implement `find_identical_traits` function

Issue:
https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/partial-correlations.gmi

* gn3/partial_correlations.py: implement function `find_identical_traits`
* tests/unit/test_partial_correlations.py: implement tests for function
  `find_identical_traits`

  Migrate `web.webqtl.correlation.correlationFunction.findIdenticalTraits`
  function in GN1 to here, adding in tests to ensure the migration works in a
  bug-compatible version with the original.
---
 gn3/partial_correlations.py | 38 +++++++++++++++++++++++++++++++++++++-
 1 file changed, 37 insertions(+), 1 deletion(-)

(limited to 'gn3')

diff --git a/gn3/partial_correlations.py b/gn3/partial_correlations.py
index c556d10..1fb0ccc 100644
--- a/gn3/partial_correlations.py
+++ b/gn3/partial_correlations.py
@@ -6,7 +6,7 @@ GeneNetwork1.
 """
 
 from functools import reduce
-from typing import Any, Sequence
+from typing import Any, Tuple, Sequence
 
 def control_samples(controls: Sequence[dict], sampleslist: Sequence[str]):
     """
@@ -86,3 +86,39 @@ def fix_samples(primary_trait: dict, control_traits: Sequence[dict]) -> Sequence
         control_vals_vars[0],
         tuple(primary_trait[sample]["variance"] for sample in primary_samples),
         control_vals_vars[1])
+
+def find_identical_traits(
+        primary_name: str, primary_value: float, control_names: Tuple[str, ...],
+        control_values: Tuple[float, ...]) -> Tuple[str, ...]:
+    """
+    Find traits that have the same value when the values are considered to
+    3 decimal places.
+
+    This is a migration of the
+    `web.webqtl.correlation.correlationFunction.findIdenticalTraits` function in
+    GN1.
+    """
+    def __merge_identicals__(
+            acc: Tuple[str, ...],
+            ident: Tuple[str, Tuple[str, ...]]) -> Tuple[str, ...]:
+        return acc + ident[1]
+
+    def __dictify_controls__(acc, control_item):
+        ckey = "{:.3f}".format(control_item[0])
+        return {**acc, ckey: acc.get(ckey, tuple()) + (control_item[1],)}
+
+    return (reduce(## for identical control traits
+        __merge_identicals__,
+        (item for item in reduce(# type: ignore[var-annotated]
+            __dictify_controls__, zip(control_values, control_names),
+            {}).items() if len(item[1]) > 1),
+        tuple())
+            or
+            reduce(## If no identical control traits, try primary and controls
+                __merge_identicals__,
+                (item for item in reduce(# type: ignore[var-annotated]
+                    __dictify_controls__,
+                    zip((primary_value,) + control_values,
+                        (primary_name,) + control_names), {}).items()
+                 if len(item[1]) > 1),
+                tuple()))
-- 
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