process-bigraph 0.0.29__tar.gz → 0.0.30__tar.gz

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Files changed (33) hide show
  1. {process-bigraph-0.0.29/process_bigraph.egg-info → process-bigraph-0.0.30}/PKG-INFO +1 -1
  2. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/__init__.py +1 -1
  3. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/composite.py +4 -0
  4. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/process_types.py +1 -1
  5. {process-bigraph-0.0.29 → process-bigraph-0.0.30/process_bigraph.egg-info}/PKG-INFO +1 -1
  6. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/setup.py +1 -1
  7. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/.github/workflows/notebook_to_html.yml +0 -0
  8. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/.github/workflows/pytest.yml +0 -0
  9. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/.gitignore +0 -0
  10. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/AUTHORS.md +0 -0
  11. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/CLA.md +0 -0
  12. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/CODE_OF_CONDUCT.md +0 -0
  13. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/CONTRIBUTING.md +0 -0
  14. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/LICENSE +0 -0
  15. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/README.md +0 -0
  16. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/doc/_static/process-bigraph.png +0 -0
  17. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/notebooks/process-bigraphs.ipynb +0 -0
  18. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/notebooks/visualize_processes.ipynb +0 -0
  19. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/emitter.py +0 -0
  20. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/experiments/__init__.py +0 -0
  21. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/experiments/minimal_gillespie.py +0 -0
  22. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/processes/__init__.py +0 -0
  23. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/processes/growth_division.py +0 -0
  24. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/processes/parameter_scan.py +0 -0
  25. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/protocols.py +0 -0
  26. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/tests.py +0 -0
  27. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph.egg-info/SOURCES.txt +0 -0
  28. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph.egg-info/dependency_links.txt +0 -0
  29. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph.egg-info/requires.txt +0 -0
  30. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph.egg-info/top_level.txt +0 -0
  31. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/pytest.ini +0 -0
  32. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/release.sh +0 -0
  33. {process-bigraph-0.0.29 → process-bigraph-0.0.30}/setup.cfg +0 -0
{process-bigraph-0.0.29/process_bigraph.egg-info → process-bigraph-0.0.30}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: process-bigraph
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- Version: 0.0.29
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+ Version: 0.0.30
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  Home-page: https://github.com/vivarium-collective/process-bigraph
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  Author: Ryan Spangler, Eran Agmon
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  Author-email: ryan.spangler@gmail.com, agmon.eran@gmail.com
{process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/__init__.py RENAMED
@@ -3,7 +3,7 @@ from bigraph_schema.registry import deep_merge, default
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  from process_bigraph.processes import register_processes
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  from process_bigraph.composite import Process, Step, Composite, interval_time_precision
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  from process_bigraph.process_types import ProcessTypes
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- from process_bigraph.emitter import gather_emitter_results, generate_emitter_state
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+ from process_bigraph.emitter import Emitter, gather_emitter_results, generate_emitter_state
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  pretty = pprint.PrettyPrinter(indent=2)
{process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/composite.py RENAMED
@@ -809,6 +809,7 @@ class Composite(Process):
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  # get all update paths, then trigger steps that
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  # depend on those paths
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  update_paths = self.apply_updates(updates)
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+
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  self.expire_process_paths(update_paths)
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  self.trigger_steps(update_paths)
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@@ -844,11 +845,14 @@ class Composite(Process):
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  updates.append(step_update)
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  update_paths = self.apply_updates(updates)
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+ self.expire_process_paths(update_paths)
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  to_run = self.cycle_step_state()
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+
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  if len(to_run) > 0:
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  self.run_steps(to_run)
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  else:
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  self.steps_run = set([])
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+
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  else:
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  self.steps_run = set([])
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{process-bigraph-0.0.29 → process-bigraph-0.0.30}/process_bigraph/process_types.py RENAMED
@@ -157,8 +157,8 @@ def deserialize_process(schema, encoded, core):
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  # TODO: this mutating the original value directly into
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  # the return value is weird (?)
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  shared = deserialized.get('shared', {})
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+ deserialized['shared'] = {}
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  if shared:
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- deserialized['shared'] = {}
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  for step_id, step_config in shared.items():
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  step = deserialize_step(
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  'step',
{process-bigraph-0.0.29 → process-bigraph-0.0.30/process_bigraph.egg-info}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: process-bigraph
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- Version: 0.0.29
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+ Version: 0.0.30
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  Home-page: https://github.com/vivarium-collective/process-bigraph
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  Author: Ryan Spangler, Eran Agmon
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  Author-email: ryan.spangler@gmail.com, agmon.eran@gmail.com
{process-bigraph-0.0.29 → process-bigraph-0.0.30}/setup.py RENAMED
@@ -2,7 +2,7 @@ import re
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  from setuptools import setup, find_packages
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- VERSION = '0.0.29'
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+ VERSION = '0.0.30'
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  with open("README.md", "r") as readme: