msasim 25.5.3__tar.gz → 25.9.3__tar.gz

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Files changed (19) hide show
  1. {msasim-25.5.3/msasim.egg-info → msasim-25.9.3}/PKG-INFO +1 -1
  2. {msasim-25.5.3 → msasim-25.9.3/msasim.egg-info}/PKG-INFO +1 -1
  3. {msasim-25.5.3 → msasim-25.9.3}/src/rateMatrixSim.cpp +9 -8
  4. {msasim-25.5.3 → msasim-25.9.3}/LICENSE +0 -0
  5. {msasim-25.5.3 → msasim-25.9.3}/README.md +0 -0
  6. {msasim-25.5.3 → msasim-25.9.3}/_Sailfish/__init__.pyi +0 -0
  7. {msasim-25.5.3 → msasim-25.9.3}/_Sailfish/py.typed +0 -0
  8. {msasim-25.5.3 → msasim-25.9.3}/msasim/__init__.py +0 -0
  9. {msasim-25.5.3 → msasim-25.9.3}/msasim/sailfish.py +0 -0
  10. {msasim-25.5.3 → msasim-25.9.3}/msasim.egg-info/SOURCES.txt +0 -0
  11. {msasim-25.5.3 → msasim-25.9.3}/msasim.egg-info/dependency_links.txt +0 -0
  12. {msasim-25.5.3 → msasim-25.9.3}/msasim.egg-info/not-zip-safe +0 -0
  13. {msasim-25.5.3 → msasim-25.9.3}/msasim.egg-info/requires.txt +0 -0
  14. {msasim-25.5.3 → msasim-25.9.3}/msasim.egg-info/top_level.txt +0 -0
  15. {msasim-25.5.3 → msasim-25.9.3}/pyproject.toml +0 -0
  16. {msasim-25.5.3 → msasim-25.9.3}/setup.cfg +0 -0
  17. {msasim-25.5.3 → msasim-25.9.3}/setup.py +0 -0
  18. {msasim-25.5.3 → msasim-25.9.3}/src/main.cpp +0 -0
  19. {msasim-25.5.3 → msasim-25.9.3}/src/modelFactory.cpp +0 -0
{msasim-25.5.3/msasim.egg-info → msasim-25.9.3}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: msasim
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- Version: 25.5.3
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+ Version: 25.9.3
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  Summary: A fast MSA simulator
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  Home-page: https://github.com/elyawy/Sailfish-backend
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  Author: Elya Wygoda
{msasim-25.5.3 → msasim-25.9.3/msasim.egg-info}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: msasim
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- Version: 25.5.3
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+ Version: 25.9.3
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  Summary: A fast MSA simulator
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  Home-page: https://github.com/elyawy/Sailfish-backend
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  Author: Elya Wygoda
{msasim-25.5.3 → msasim-25.9.3}/src/rateMatrixSim.cpp RENAMED
@@ -134,20 +134,21 @@ void rateMatrixSim::mutateSeqRecuresively(tree::nodeP currentNode, int seqLength
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  mutateSeqAlongBranch(node, seqLength);
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  if ((*_nodesToSave)[node->id()]) saveSequence(node->id(), node->name());
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  mutateSeqRecuresively(node, seqLength);
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-
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- if (!_subManager.isEmpty(currentNode->id())) {
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- _subManager.undoSubs(currentNode->id(), _rootSequence, _rateCategories, _sp.get());
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+ if (!_subManager.isEmpty(node->id())) {
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+ _subManager.undoSubs(node->id(), _rootSequence, _rateCategories, _sp.get());
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  }
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  }
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  }
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  void rateMatrixSim::mutateSeqAlongBranch(tree::nodeP currentNode, int seqLength) {
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  const MDOUBLE distToFather = currentNode->dis2father();
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- if (distToFather > 0.5) {
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- mutateEntireSeq(currentNode, seqLength);
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- } else {
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- mutateSeqGillespie(currentNode, seqLength, distToFather);
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- }
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+ mutateEntireSeq(currentNode, seqLength);
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+
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+ // if (distToFather > 0.5) {
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+ // mutateEntireSeq(currentNode, seqLength);
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+ // } else {
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+ // mutateSeqGillespie(currentNode, seqLength, distToFather);
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+ // }
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  // testSumOfRates();
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  }
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{msasim-25.5.3 → msasim-25.9.3}/LICENSE RENAMED
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{msasim-25.5.3 → msasim-25.9.3}/README.md RENAMED
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{msasim-25.5.3 → msasim-25.9.3}/_Sailfish/__init__.pyi RENAMED
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{msasim-25.5.3 → msasim-25.9.3}/_Sailfish/py.typed RENAMED
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{msasim-25.5.3 → msasim-25.9.3}/msasim/__init__.py RENAMED
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{msasim-25.5.3 → msasim-25.9.3}/msasim/sailfish.py RENAMED
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{msasim-25.5.3 → msasim-25.9.3}/pyproject.toml RENAMED
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{msasim-25.5.3 → msasim-25.9.3}/setup.cfg RENAMED
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{msasim-25.5.3 → msasim-25.9.3}/setup.py RENAMED
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{msasim-25.5.3 → msasim-25.9.3}/src/main.cpp RENAMED
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{msasim-25.5.3 → msasim-25.9.3}/src/modelFactory.cpp RENAMED
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