RNApolis 0.4.7__py3-none-any.whl → 0.4.8__py3-none-any.whl

{RNApolis-0.4.7.dist-info → RNApolis-0.4.8.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: RNApolis
-Version: 0.4.7
+Version: 0.4.8
 Summary: A Python library containing RNA-related bioinformatics functions and classes
 Home-page: https://github.com/tzok/rnapolis-py
 Author: Tomasz Zok

{RNApolis-0.4.7.dist-info → RNApolis-0.4.8.dist-info}/RECORD

@@ -1,6 +1,6 @@
 rnapolis/annotator.py,sha256=7U3f0gchKdIGc6FwJx0UAc_95HJI5SgECj-b7-1yBhc,22086
 rnapolis/clashfinder.py,sha256=i95kp0o6OWNqmJDBr-PbsZd7RY2iJtBDr7QqolJSuAQ,8513
-rnapolis/common.py,sha256=NWhlPwT521jCSWcDcm_TNoYENjoZWpllf9sS-WuTEmA,30361
+rnapolis/common.py,sha256=7KSWZzqR7ntpaS6VRDYgpP2pC1dnBttOzYB06hQzWEI,30499
 rnapolis/metareader.py,sha256=I1-cXc2YNBPwa3zihAnMTjEsAo79tEKzSmWu5yvN1Pk,2071
 rnapolis/molecule_filter.py,sha256=hB6-nXgjmw7FAsQ3bj0cZ2FvuW2I1PXunEfcdwEUB1o,7389
 rnapolis/motif_extractor.py,sha256=duHvpi9Ulcny9K60E6VBpz5RpJZw-KdTB4_Ph0iP478,774
@@ -9,9 +9,9 @@ rnapolis/rfam_folder.py,sha256=SjiiyML_T1__saruFwSMJEoQ7Y55GIU8ktS8ZUn5-fw,11111
 rnapolis/tertiary.py,sha256=6t9ZB4w33-5n_M3sns1RoFXCOTgVAgGH4WDNG5OG9Kg,23426
 rnapolis/transformer.py,sha256=V9nOQvdq4-p7yUWo0vQg0CDQMpmyxz9t4TMSRVEKHnw,1817
 rnapolis/util.py,sha256=IdquFO3PV1_KDqodjupzm0Rqvgy0CeSzxGHaGEHYXVU,543
-RNApolis-0.4.7.dist-info/LICENSE,sha256=ZGRu12MzCgbYA-Lt8MyBlmjvPZh7xfiD5u5wBx0enq4,1066
-RNApolis-0.4.7.dist-info/METADATA,sha256=551L8oU_7CdBw7v0jezfHQX7YzF9Fo83E6NVbLVfA50,54322
-RNApolis-0.4.7.dist-info/WHEEL,sha256=PZUExdf71Ui_so67QXpySuHtCi3-J3wvF4ORK6k_S8U,91
-RNApolis-0.4.7.dist-info/entry_points.txt,sha256=foN2Pn5e-OzEz0fFmNoX6PnFSZFQntOlY8LbognP5F0,308
-RNApolis-0.4.7.dist-info/top_level.txt,sha256=LcO18koxZcWoJ21KDRRRo_tyIbmXL5z61dPitZpy8yc,9
-RNApolis-0.4.7.dist-info/RECORD,,
+RNApolis-0.4.8.dist-info/LICENSE,sha256=ZGRu12MzCgbYA-Lt8MyBlmjvPZh7xfiD5u5wBx0enq4,1066
+RNApolis-0.4.8.dist-info/METADATA,sha256=FZsizaaGYKRz7ndlAySWt8mPfpjjHUoP-OzXaO3LBv8,54322
+RNApolis-0.4.8.dist-info/WHEEL,sha256=PZUExdf71Ui_so67QXpySuHtCi3-J3wvF4ORK6k_S8U,91
+RNApolis-0.4.8.dist-info/entry_points.txt,sha256=foN2Pn5e-OzEz0fFmNoX6PnFSZFQntOlY8LbognP5F0,308
+RNApolis-0.4.8.dist-info/top_level.txt,sha256=LcO18koxZcWoJ21KDRRRo_tyIbmXL5z61dPitZpy8yc,9
+RNApolis-0.4.8.dist-info/RECORD,,

rnapolis/common.py

@@ -704,12 +704,17 @@ class BpSeq:
 
     @cached_property
     def dot_bracket(self):
-        pulp.LpSolverDefault.msg = False
-        return self.convert_to_dot_bracket(pulp.LpSolverDefault)
+        if pulp.HiGHS_CMD().available():
+            solver = pulp.HiGHS_CMD()  # much faster than default
+        else:
+            solver = pulp.LpSolverDefault
+        if solver is not None:
+            solver.msg = False
+        return self.convert_to_dot_bracket(solver)
 
     def convert_to_dot_bracket(self, solver: pulp.LpSolver):
         # if PuLP solvers are not installed, use FCFS
-        if len(pulp.listSolvers(onlyAvailable=True)) == 0:
+        if solver is None:
             return self.fcfs()
 
         # build conflict graph