RNApolis 0.4.0__tar.gz → 0.4.1__tar.gz

{rnapolis-0.4.0/src/RNApolis.egg-info → rnapolis-0.4.1}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: RNApolis
-Version: 0.4.0
+Version: 0.4.1
 Summary: A Python library containing RNA-related bioinformatics functions and classes
 Home-page: https://github.com/tzok/rnapolis-py
 Author: Tomasz Zok

{rnapolis-0.4.0 → rnapolis-0.4.1}/setup.py

@@ -5,7 +5,7 @@ with open("README.md") as f:
 
 setup(
     name="RNApolis",
-    version="0.4.0",
+    version="0.4.1",
     packages=["rnapolis"],
     package_dir={"": "src"},
     author="Tomasz Zok",

{rnapolis-0.4.0 → rnapolis-0.4.1/src/RNApolis.egg-info}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: RNApolis
-Version: 0.4.0
+Version: 0.4.1
 Summary: A Python library containing RNA-related bioinformatics functions and classes
 Home-page: https://github.com/tzok/rnapolis-py
 Author: Tomasz Zok

{rnapolis-0.4.0 → rnapolis-0.4.1}/src/rnapolis/tertiary.py

@@ -548,7 +548,20 @@ class Mapping2D3D:
         result: Dict[int, List] = {}
         residue_map: Dict[Residue3D, int] = {}
         i = 1
-        for residue in self.structure3d.residues:
+
+        for j, residue in enumerate(self.structure3d.residues):
+            if self.find_gaps and j > 0:
+                previous = self.structure3d.residues[j - 1]
+                if (
+                    previous.is_nucleotide
+                    and residue.is_nucleotide
+                    and previous.label
+                    and residue.label
+                    and previous.label.chain == residue.label.chain
+                ):
+                    for k in range(residue.label.number - previous.label.number - 1):
+                        result[i] = [i, "?", 0]
+                        i += 1
             if residue.is_nucleotide:
                 result[i] = [i, residue.one_letter_name, 0]
                 residue_map[residue] = i