msasim 24.13.0__cp311-cp311-musllinux_1_2_x86_64.whl → 25.3.0__cp311-cp311-musllinux_1_2_x86_64.whl

msasim/sailfish.py

@@ -218,6 +218,7 @@ class SimProtocol:
                  insertion_rate: float = 0.0,
                  deletion_dist: Distribution = ZipfDistribution(1.7, 50),
                  insertion_dist: Distribution = ZipfDistribution(1.7, 50),
+                 minimum_seq_size: int = 100,
                  seed: int = 0,
         ):
         if isinstance(tree, Tree):
@@ -237,7 +238,8 @@ class SimProtocol:
         self.set_insertion_rates(insertion_rate=insertion_rate)
         self.set_deletion_length_distributions(deletion_dist=deletion_dist)
         self.set_insertion_length_distributions(insertion_dist=insertion_dist)
-    
+        self.set_min_sequence_size(min_sequence_size=minimum_seq_size)
+
     def get_tree(self) -> Tree:
         return self._tree
     
@@ -264,6 +266,11 @@ class SimProtocol:
     def get_sequence_size(self) -> int:
         return self._root_seq_size
     
+    def set_min_sequence_size(self, min_sequence_size: int) -> None:
+        self._sim.set_minimum_sequence_size(min_sequence_size)
+        self._min_seq_size = min_sequence_size
+
+    
     def set_insertion_rates(self, insertion_rate: Optional[float] = None, insertion_rates: Optional[List[float]] = None) -> None:
         if insertion_rate is not None:
             self.insertion_rates = [insertion_rate] * self._num_branches

{msasim-24.13.0.dist-info → msasim-25.3.0.dist-info}/METADATA

@@ -1,6 +1,6 @@
-Metadata-Version: 2.1
+Metadata-Version: 2.2
 Name: msasim
-Version: 24.13.0
+Version: 25.3.0
 Summary: A fast MSA simulator
 Home-page: https://github.com/elyawy/Sailfish-backend
 Author: Elya Wygoda
@@ -10,6 +10,14 @@ Description-Content-Type: text/markdown
 License-File: LICENSE
 Provides-Extra: test
 Requires-Dist: pytest; extra == "test"
+Dynamic: author
+Dynamic: author-email
+Dynamic: description
+Dynamic: description-content-type
+Dynamic: home-page
+Dynamic: provides-extra
+Dynamic: requires-python
+Dynamic: summary
 
 # Sailfish
 

msasim-25.3.0.dist-info/RECORD

@@ -0,0 +1,10 @@
+_Sailfish.cpython-311-x86_64-linux-musl.so,sha256=GBlLBhoka43dSqPhDF9OY8ffThCZHGjAHZ-qxv2W42Q,1340897
+msasim-25.3.0.dist-info/LICENSE,sha256=p1Aa_mM2Nu6dG3XqMVU62Jhf04lNOwtXUrhhvhcDips,10312
+msasim-25.3.0.dist-info/WHEEL,sha256=bazm_2wUv8r3ZdI3EFF1W8XzzfWWNf0Zi3x2NpmmA_0,112
+msasim-25.3.0.dist-info/RECORD,,
+msasim-25.3.0.dist-info/top_level.txt,sha256=NS1ILx5V94Yyh_M7yDrrqbBPu1TL_zJuxhsI90YEJVY,17
+msasim-25.3.0.dist-info/METADATA,sha256=Dy8qu-7ODzoc1DSfEaIEZeMon5dAOnSwPg_v83cIYnA,1644
+msasim.libs/libgcc_s-a3a07607.so.1,sha256=5ptIUeAzZweNZrFehN0_Bb5B0FcJgux7NbAFoU8vwwo,148041
+msasim.libs/libstdc++-496613c0.so.6.0.32,sha256=AwZhL5WFT99I2Q6vIxXOhW7qddfuOZ1xecxiP9QTVY4,3494361
+msasim/sailfish.py,sha256=TOruxZZJC8De43Tx-wlgL0YlnwsJ092WLnYR6XHZX4M,26199
+msasim/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0

{msasim-24.13.0.dist-info → msasim-25.3.0.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: setuptools (75.6.0)
+Generator: setuptools (75.8.0)
 Root-Is-Purelib: false
 Tag: cp311-cp311-musllinux_1_2_x86_64
 

msasim-24.13.0.dist-info/RECORD

@@ -1,10 +0,0 @@
-_Sailfish.cpython-311-x86_64-linux-musl.so,sha256=PwS_Nt3XKXT5UJFTNR0WTxY_9l8GmRwkPG_ymKobiq4,1340849
-msasim.libs/libstdc++-496613c0.so.6.0.32,sha256=AwZhL5WFT99I2Q6vIxXOhW7qddfuOZ1xecxiP9QTVY4,3494361
-msasim.libs/libgcc_s-a3a07607.so.1,sha256=5ptIUeAzZweNZrFehN0_Bb5B0FcJgux7NbAFoU8vwwo,148041
-msasim/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
-msasim/sailfish.py,sha256=o_6N1f1rFXgG0z_b17CJRC3wUzIcoKy__c6s1FroHgI,25901
-msasim-24.13.0.dist-info/top_level.txt,sha256=NS1ILx5V94Yyh_M7yDrrqbBPu1TL_zJuxhsI90YEJVY,17
-msasim-24.13.0.dist-info/RECORD,,
-msasim-24.13.0.dist-info/LICENSE,sha256=p1Aa_mM2Nu6dG3XqMVU62Jhf04lNOwtXUrhhvhcDips,10312
-msasim-24.13.0.dist-info/METADATA,sha256=EnhB_caqxOZOhmTtV7wOJSzEMx-HZyXE4OjlwKsVdVQ,1467
-msasim-24.13.0.dist-info/WHEEL,sha256=xlZFz0OpWVCP3tw4yhNz35wYwmPRd-qlUAr-4_O4igQ,112