RNApolis 0.3.5__py3-none-any.whl → 0.3.7__py3-none-any.whl

{RNApolis-0.3.5.dist-info → RNApolis-0.3.7.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: RNApolis
-Version: 0.3.5
+Version: 0.3.7
 Summary: A Python library containing RNA-related bioinformatics functions and classes
 Home-page: https://github.com/tzok/rnapolis-py
 Author: Tomasz Zok

{RNApolis-0.3.5.dist-info → RNApolis-0.3.7.dist-info}/RECORD

@@ -5,13 +5,13 @@ rnapolis/metareader.py,sha256=4qtMKRvww2sUStLeV8WVrLEt-ScydHUv4Gxx96tnf-M,1683
 rnapolis/molecule_filter.py,sha256=NhjuqdCRnXgPefWZPeTq77tifmnAzamQtA0ODqPPG9k,6918
 rnapolis/motif_extractor.py,sha256=duHvpi9Ulcny9K60E6VBpz5RpJZw-KdTB4_Ph0iP478,774
 rnapolis/parser.py,sha256=Z3Zd_IuRyOP45x5BStgu7UgoyHthhw55fT3udHUhAE4,11905
-rnapolis/rfam_folder.py,sha256=TgLDSP-cPbEbVCrlM9K-SMkcU8X-UG9q1boS6j--aV8,10812
+rnapolis/rfam_folder.py,sha256=F4CTGgqKQAUSGC8uJxJJRng9BaoqDlK7gmXMQIxblLQ,11173
 rnapolis/tertiary.py,sha256=iWMPD9c21rjMPpEdBd7mPCQgds65IbOr4_Fy06s0NoU,18957
 rnapolis/transformer.py,sha256=V9nOQvdq4-p7yUWo0vQg0CDQMpmyxz9t4TMSRVEKHnw,1817
 rnapolis/util.py,sha256=IdquFO3PV1_KDqodjupzm0Rqvgy0CeSzxGHaGEHYXVU,543
-RNApolis-0.3.5.dist-info/LICENSE,sha256=ZGRu12MzCgbYA-Lt8MyBlmjvPZh7xfiD5u5wBx0enq4,1066
-RNApolis-0.3.5.dist-info/METADATA,sha256=ffQpHeafdHl_jQtXp9-hmLD94FyFI7QiCSYgilQCtqI,54300
-RNApolis-0.3.5.dist-info/WHEEL,sha256=GJ7t_kWBFywbagK5eo9IoUwLW6oyOeTKmQ-9iHFVNxQ,92
-RNApolis-0.3.5.dist-info/entry_points.txt,sha256=foN2Pn5e-OzEz0fFmNoX6PnFSZFQntOlY8LbognP5F0,308
-RNApolis-0.3.5.dist-info/top_level.txt,sha256=LcO18koxZcWoJ21KDRRRo_tyIbmXL5z61dPitZpy8yc,9
-RNApolis-0.3.5.dist-info/RECORD,,
+RNApolis-0.3.7.dist-info/LICENSE,sha256=ZGRu12MzCgbYA-Lt8MyBlmjvPZh7xfiD5u5wBx0enq4,1066
+RNApolis-0.3.7.dist-info/METADATA,sha256=MzqyQQvP9rLBF8wjPp8zDJei55L_tT27uFjPDihvWP0,54300
+RNApolis-0.3.7.dist-info/WHEEL,sha256=GJ7t_kWBFywbagK5eo9IoUwLW6oyOeTKmQ-9iHFVNxQ,92
+RNApolis-0.3.7.dist-info/entry_points.txt,sha256=foN2Pn5e-OzEz0fFmNoX6PnFSZFQntOlY8LbognP5F0,308
+RNApolis-0.3.7.dist-info/top_level.txt,sha256=LcO18koxZcWoJ21KDRRRo_tyIbmXL5z61dPitZpy8yc,9
+RNApolis-0.3.7.dist-info/RECORD,,

rnapolis/rfam_folder.py

@@ -137,7 +137,11 @@ def analyze_cmsearch(cmsearch: str, fasta: FASTA, count: int = 1):
         for i in range(len(structure)):
             if structure[i] != " ":
                 break
+
         j = structure.find(" CS")
+        while structure[j] == " ":
+            j -= 1
+        j += 1
 
         structure = structure[i:j]
         sequence = sequence[i:j].upper()
@@ -210,6 +214,15 @@ def analyze_cmsearch(cmsearch: str, fasta: FASTA, count: int = 1):
 
         assert len(sequence) == len(structure)
 
+        i = fasta.sequence.find(sequence)
+        structure = (
+            "." * i + structure + "." * (len(fasta.sequence) - len(sequence) - i)
+        )
+        sequence = fasta.sequence
+
+        assert len(sequence) == len(structure)
+        assert len(sequence) == len(fasta.sequence)
+
         structure = (
             structure.replace(":", ".")
             .replace("-", ".")