From 022d61464dbeb259b5cf92017cf776b4d72ff992 Mon Sep 17 00:00:00 2001
From: Sepand Haghighi <sepand.haghighi@yahoo.com>
Date: Thu, 10 Oct 2024 17:23:29 +0330
Subject: [PATCH] Minor edits (#21)

* fix : primer_sequence --> sequence

* doc : CHANGELOG.md updated

* fix : new_seq --> new_sequence
---
 CHANGELOG.md  |  2 +-
 opr/primer.py | 38 +++++++++++++++++++-------------------
 2 files changed, 20 insertions(+), 20 deletions(-)

diff --git a/CHANGELOG.md b/CHANGELOG.md
index 84ba67d..1673157 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -9,7 +9,7 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.
 ### Changed
 ## [0.1] - 2024-06-05
 ### Added
-- MeltingTemperature enum
+- `MeltingTemperature` enum
 - Basic melting temperature calculation
 - `addition` and `multipication` operators overload
 - `len` magic overload
diff --git a/opr/primer.py b/opr/primer.py
index 4e3c1f1..929ac8b 100644
--- a/opr/primer.py
+++ b/opr/primer.py
@@ -29,15 +29,15 @@ class Primer:
     >>> oprimer.molecular_weight
     """
 
-    def __init__(self, primer_sequence):
+    def __init__(self, sequence):
         """
         Initialize the Primer instance.
 
-        :param primer_sequence: primer nucleotides sequence
-        :type primer_sequence: str
+        :param sequence: primer nucleotides sequence
+        :type sequence: str
         :return: an instance of the Primer class
         """
-        self._sequence = Primer.validate_primer(primer_sequence)
+        self._sequence = Primer.validate_primer(sequence)
         self._molecular_weight = None
         self._gc_content = None
         self._melting_temperature = {
@@ -86,11 +86,11 @@ def reverse(self, inplace=False):
         :type inplace: bool
         :return: new Primer object or None
         """
-        new_seq = self._sequence[::-1]
+        new_sequence = self._sequence[::-1]
         if inplace:
-            self._sequence = new_seq
+            self._sequence = new_sequence
         else:
-            return Primer(primer_sequence=new_seq)
+            return Primer(sequence=new_sequence)
 
     def complement(self, inplace=False):
         """
@@ -100,33 +100,33 @@ def complement(self, inplace=False):
         :type inplace: bool
         :return: new Primer object or None
         """
-        new_seq = ""
+        new_sequence = ""
         for item in self._sequence:
-            new_seq += DNA_COMPLEMENT_MAP[item]
+            new_sequence += DNA_COMPLEMENT_MAP[item]
         if inplace:
-            self._sequence = new_seq
+            self._sequence = new_sequence
         else:
-            return Primer(primer_sequence=new_seq)
+            return Primer(sequence=new_sequence)
 
     @staticmethod
-    def validate_primer(primer_sequence):
+    def validate_primer(sequence):
         """
         Validate the given primer sequence.
 
-        :param primer_sequence: primer nucleotides sequence
-        :type primer_sequence: any
+        :param sequence: primer nucleotides sequence
+        :type sequence: any
         :return: an uppercased primer sequence
         """
-        if not isinstance(primer_sequence, str):
+        if not isinstance(sequence, str):
             raise OPRBaseError(PRIMER_SEQUENCE_TYPE_ERROR)
-        primer_sequence = primer_sequence.upper()
+        sequence = sequence.upper()
 
-        if len(primer_sequence) < PRIMER_LOWER_LENGTH or len(primer_sequence) > PRIMER_HIGHEST_LENGTH:
+        if len(sequence) < PRIMER_LOWER_LENGTH or len(sequence) > PRIMER_HIGHEST_LENGTH:
             warn(PRIMER_SEQUENCE_LENGTH_WARNING, RuntimeWarning)
 
-        if not all(base in VALID_BASES for base in primer_sequence):
+        if not all(base in VALID_BASES for base in sequence):
             raise OPRBaseError(PRIMER_SEQUENCE_VALID_BASES_ERROR)
-        return primer_sequence
+        return sequence
 
     @property
     def sequence(self):