bluecellulab 1.3.6__tar.gz → 1.3.8__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Potentially problematic release.

This version of bluecellulab might be problematic. Click here for more details.

Files changed (383) hide show
  1. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/PKG-INFO +2 -2
  2. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/README.rst +1 -1
  3. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/core.py +1 -1
  4. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab.egg-info/PKG-INFO +2 -2
  5. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_ballstick.py +3 -3
  6. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/.compile_mod.sh +0 -0
  7. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/.gitattributes +0 -0
  8. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/.github/workflows/release.yml +0 -0
  9. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/.github/workflows/test.yml +0 -0
  10. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/.gitignore +0 -0
  11. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/.gitlab-ci.yml +0 -0
  12. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/.readthedocs.yml +0 -0
  13. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/.zenodo.json +0 -0
  14. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/AUTHORS.txt +0 -0
  15. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/CHANGELOG.rst +0 -0
  16. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/LICENSE +0 -0
  17. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/MANIFEST.in +0 -0
  18. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/Makefile +0 -0
  19. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/__init__.py +0 -0
  20. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/__init__.py +0 -0
  21. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/ballstick/__init__.py +0 -0
  22. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/ballstick/emodel.hoc +0 -0
  23. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/ballstick/morphology.asc +0 -0
  24. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/cell_dict.py +0 -0
  25. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/injector.py +0 -0
  26. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/plotting.py +0 -0
  27. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/random.py +0 -0
  28. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/section_distance.py +0 -0
  29. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/serialized_sections.py +0 -0
  30. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/sonata_proxy.py +0 -0
  31. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/stimuli_generator.py +0 -0
  32. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/template.py +0 -0
  33. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/__init__.py +0 -0
  34. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/circuit_access.py +0 -0
  35. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/config/__init__.py +0 -0
  36. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/config/sections.py +0 -0
  37. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/config/simulation_config.py +0 -0
  38. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/format.py +0 -0
  39. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/iotools.py +0 -0
  40. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/node_id.py +0 -0
  41. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/simulation_access.py +0 -0
  42. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/synapse_properties.py +0 -0
  43. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/circuit/validate.py +0 -0
  44. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/connection.py +0 -0
  45. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/dendrogram.py +0 -0
  46. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/exceptions.py +0 -0
  47. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/hoc/Cell.hoc +0 -0
  48. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/hoc/RNGSettings.hoc +0 -0
  49. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/hoc/TDistFunc.hoc +0 -0
  50. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/hoc/TStim.hoc +0 -0
  51. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/hoc/fileUtils.hoc +0 -0
  52. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/importer.py +0 -0
  53. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/neuron_interpreter.py +0 -0
  54. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/plotwindow.py +0 -0
  55. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/psection.py +0 -0
  56. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/psegment.py +0 -0
  57. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/rngsettings.py +0 -0
  58. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/simulation/__init__.py +0 -0
  59. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/simulation/neuron_globals.py +0 -0
  60. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/simulation/simulation.py +0 -0
  61. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/ssim.py +0 -0
  62. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/stimuli.py +0 -0
  63. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/synapse/__init__.py +0 -0
  64. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/synapse/synapse_factory.py +0 -0
  65. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/synapse/synapse_params.py +0 -0
  66. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/synapse/synapse_types.py +0 -0
  67. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/tools.py +0 -0
  68. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab.egg-info/SOURCES.txt +0 -0
  69. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab.egg-info/dependency_links.txt +0 -0
  70. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab.egg-info/requires.txt +0 -0
  71. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab.egg-info/top_level.txt +0 -0
  72. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/Makefile +0 -0
  73. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/images/voltage-readme.png +0 -0
  74. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/make.bat +0 -0
  75. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/requirements_docs.txt +0 -0
  76. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/source/_static/.gitkeep +0 -0
  77. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/source/api.rst +0 -0
  78. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/source/changelog.rst +0 -0
  79. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/source/conf.py +0 -0
  80. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/source/index.rst +0 -0
  81. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/source/logo/BlueCelluLabBanner.jpg +0 -0
  82. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/1-singlecell/hoc/cADpyr_L2TPC.hoc +0 -0
  83. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/1-singlecell/morphology/rr110330_C3_idA.asc +0 -0
  84. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/1-singlecell/singlecell.ipynb +0 -0
  85. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/.exception_node +0 -0
  86. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/circuit_sonata.json +0 -0
  87. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/hoc/cADpyr_L2TPC.hoc +0 -0
  88. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/hoc/cNAC_L23BTC.hoc +0 -0
  89. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/morphologies/asc/C210401C.asc +0 -0
  90. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/morphologies/asc/rr110330_C3_idA.asc +0 -0
  91. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/morphologies/swc/C210401C.swc +0 -0
  92. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/morphologies/swc/rr110330_C3_idA.swc +0 -0
  93. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/hoc/bAC_IN.hoc +0 -0
  94. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/hoc/cNAD_noscltb.hoc +0 -0
  95. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/morphologies/asc/dend-jy180406_B_idC_axon-jy171019_B_10x_resta_idB_-_Scale_x1.000_y0.950_z1.000_-_Clone_1.asc +0 -0
  96. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/morphologies/asc/dend-jy180406_C_idB_axon-04752-04764-X11537-Y13753_final_-_Clone_3.asc +0 -0
  97. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/morphologies/swc/dend-jy180406_B_idC_axon-jy171019_B_10x_resta_idB_-_Scale_x1.000_y0.950_z1.000_-_Clone_1.swc +0 -0
  98. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/morphologies/swc/dend-jy180406_C_idB_axon-04752-04764-X11537-Y13753_final_-_Clone_3.swc +0 -0
  99. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/edges_AB.h5 +0 -0
  100. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/edges_AB.h5.txt +0 -0
  101. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/local_edges_A.h5 +0 -0
  102. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/local_edges_A.h5.txt +0 -0
  103. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/local_edges_B.h5 +0 -0
  104. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/local_edges_B.h5.txt +0 -0
  105. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/node_sets.json +0 -0
  106. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/nodes_A.h5 +0 -0
  107. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/nodes_A.h5.txt +0 -0
  108. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/nodes_B.h5 +0 -0
  109. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/nodes_B.h5.txt +0 -0
  110. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/circuit_sonata_quick_scx_multi_circuit/simulation_sonata.json +0 -0
  111. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/circuit_sonata.json +0 -0
  112. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_hypamp/out.h5 +0 -0
  113. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_hypamp/populations_offset.dat +0 -0
  114. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_hypamp/soma.h5 +0 -0
  115. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_noinput/out.h5 +0 -0
  116. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_noinput/populations_offset.dat +0 -0
  117. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_noinput/soma.h5 +0 -0
  118. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_ornstein/out.h5 +0 -0
  119. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_ornstein/populations_offset.dat +0 -0
  120. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_ornstein/soma.h5 +0 -0
  121. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_shotnoise/out.h5 +0 -0
  122. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_shotnoise/populations_offset.dat +0 -0
  123. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/output_sonata_shotnoise/soma.h5 +0 -0
  124. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/simulation_config_hypamp.json +0 -0
  125. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/simulation_config_noinput.json +0 -0
  126. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/simulation_config_ornstein.json +0 -0
  127. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sim_quick_scx_sonata_multicircuit/simulation_config_shotnoise.json +0 -0
  128. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/2-sonata-network/sonata-network.ipynb +0 -0
  129. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/3-bpap/bpap.ipynb +0 -0
  130. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/README.rst +0 -0
  131. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/Ca.mod +0 -0
  132. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/CaDynamics_DC0.mod +0 -0
  133. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/CaDynamics_E2.mod +0 -0
  134. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/Ca_HVA.mod +0 -0
  135. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/Ca_HVA2.mod +0 -0
  136. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/Ca_LVAst.mod +0 -0
  137. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/DetAMPANMDA.mod +0 -0
  138. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/DetGABAAB.mod +0 -0
  139. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/GluSynapse.mod +0 -0
  140. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/Ih.mod +0 -0
  141. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/Im.mod +0 -0
  142. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/K_Pst.mod +0 -0
  143. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/K_Tst.mod +0 -0
  144. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/KdShu2007.mod +0 -0
  145. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/NaTa_t.mod +0 -0
  146. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/NaTg.mod +0 -0
  147. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/NaTs2_t.mod +0 -0
  148. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/Nap_Et2.mod +0 -0
  149. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/ProbAMPANMDA_EMS.mod +0 -0
  150. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/ProbGABAAB_EMS.mod +0 -0
  151. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/README.md +0 -0
  152. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/SK_E2.mod +0 -0
  153. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/SKv3_1.mod +0 -0
  154. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/StochKv.mod +0 -0
  155. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/StochKv3.mod +0 -0
  156. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/TTXDynamicsSwitch.mod +0 -0
  157. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/VecStim.mod +0 -0
  158. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/gap.mod +0 -0
  159. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/mechanisms/netstim_inhpoisson.mod +0 -0
  160. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/examples/readme-plot.ipynb +0 -0
  161. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/pyproject.toml +0 -0
  162. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/setup.cfg +0 -0
  163. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/setup.py +0 -0
  164. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/__init__.py +0 -0
  165. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/data/synapse_replay_file/spikes.dat +0 -0
  166. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/ballstick_cell/analytic_expsyn.txt +0 -0
  167. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/ballstick_cell/ballstick.asc +0 -0
  168. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/ballstick_cell/ballstick.hoc +0 -0
  169. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/ballstick_cell/bs.cfg +0 -0
  170. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/cell_example1/test_cell.asc +0 -0
  171. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/cell_example1/test_cell.hoc +0 -0
  172. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/cell_example1/test_cell_longname1.hoc +0 -0
  173. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/cell_example2/test_cell.asc +0 -0
  174. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/cell_example2/test_cell.hoc +0 -0
  175. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/cell_example_cstut/cSTUT_7.hoc +0 -0
  176. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/cell_example_cstut/test_cell.asc +0 -0
  177. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/cell_example_empty/test_cell.asc +0 -0
  178. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/cell_example_empty/test_cell.hoc +0 -0
  179. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/cell_example_empty/test_cell_v6a.hoc +0 -0
  180. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/circuit_config.json +0 -0
  181. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/hoc/CA1_pyr_cACpyr_mpg141017_a1_2_idC_2019032814340.hoc +0 -0
  182. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/hoc/CA1_pyr_cACpyr_mpg141217_A_idB_2019030511280.hoc +0 -0
  183. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/hoc/CA1_pyr_cACpyr_mpg150305_A_idB_2019030511201.hoc +0 -0
  184. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/hoc/CA1_pyr_cACpyr_oh140807_A0_idB_2019030510521.hoc +0 -0
  185. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/hoc/CA1_pyr_cACpyr_oh140807_A0_idF_2019030511545.hoc +0 -0
  186. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/hoc/CA1_pyr_cACpyr_oh140807_A0_idJ_2019032814272.hoc +0 -0
  187. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/morphologies/dend-051208AM2_axon-mpg141017_a1-2_idC_-_Scale_x1.000_y0.850_z1.000.swc +0 -0
  188. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/morphologies/dend-051208AM2_axon-mpg141017_a1-2_idC_-_Scale_x1.000_y0.850_z1.000_-_Clone_10.swc +0 -0
  189. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/morphologies/dend-mpg141216_A_idA_axon-mpg141017_a1-2_idC_-_Scale_x1.000_y0.850_z1.000_-_Clone_7.swc +0 -0
  190. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/morphologies/dend-mpg141216_A_idA_axon-mpg141017_a1-2_idC_-_Scale_x1.000_y0.900_z1.000_-_Clone_12.swc +0 -0
  191. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/morphologies/dend-mpg141216_A_idA_axon-mpg141017_a1-2_idC_-_Scale_x1.000_y0.900_z1.000_-_Clone_4.swc +0 -0
  192. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/morphologies/dend-mpg141216_A_idA_axon-mpg141017_a1-2_idC_-_Scale_x1.000_y0.950_z1.000_-_Clone_4.swc +0 -0
  193. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/morphologies/dend-oh140521_B0_Rat_idC_axon-mpg141017_a1-2_idC_-_Scale_x1.000_y0.850_z1.000_-_Clone_1.swc +0 -0
  194. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/morphologies/dend-oh140521_B0_Rat_idC_axon-mpg141017_a1-2_idC_-_Scale_x1.000_y0.850_z1.000_-_Clone_12.swc +0 -0
  195. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/morphologies/dend-oh140807_A0_idF_axon-mpg141017_a1-2_idC_-_Scale_x1.000_y0.850_z1.000_-_Clone_12.swc +0 -0
  196. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/components/morphologies/mpg141017_a1-2_idC_-_Scale_x1.000_y0.850_z1.000_-_Clone_11.swc +0 -0
  197. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/copy-hoc-morphs.ipynb +0 -0
  198. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/edges/edges.h5 +0 -0
  199. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/hippocampus_projections/nodes.h5 +0 -0
  200. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/hoc-and-morphs.csv +0 -0
  201. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/id_mapping.json +0 -0
  202. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/node_sets.json +0 -0
  203. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_hipp_mooc_most_central_10_SP_PC/nodes/nodes.h5 +0 -0
  204. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/circuit_sonata.json +0 -0
  205. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/components/hoc/cADpyr_L2TPC.hoc +0 -0
  206. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/components/hoc/cNAC_L23BTC.hoc +0 -0
  207. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/components/morphologies/asc/C210401C.asc +0 -0
  208. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/components/morphologies/asc/rr110330_C3_idA.asc +0 -0
  209. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/components/morphologies/swc/C210401C.swc +0 -0
  210. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/components/morphologies/swc/rr110330_C3_idA.swc +0 -0
  211. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/local_edges_A.h5 +0 -0
  212. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/local_edges_A.h5.txt +0 -0
  213. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/node_sets.json +0 -0
  214. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/nodes_A.h5 +0 -0
  215. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx/nodes_A.h5.txt +0 -0
  216. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/.exception_node +0 -0
  217. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/circuit_sonata.json +0 -0
  218. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/hoc/cADpyr_L2TPC.hoc +0 -0
  219. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/hoc/cNAC_L23BTC.hoc +0 -0
  220. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/morphologies/asc/C210401C.asc +0 -0
  221. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/morphologies/asc/rr110330_C3_idA.asc +0 -0
  222. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/morphologies/swc/C210401C.swc +0 -0
  223. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitA/morphologies/swc/rr110330_C3_idA.swc +0 -0
  224. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/hoc/bAC_IN.hoc +0 -0
  225. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/hoc/cNAD_noscltb.hoc +0 -0
  226. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/morphologies/asc/dend-jy180406_B_idC_axon-jy171019_B_10x_resta_idB_-_Scale_x1.000_y0.950_z1.000_-_Clone_1.asc +0 -0
  227. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/morphologies/asc/dend-jy180406_C_idB_axon-04752-04764-X11537-Y13753_final_-_Clone_3.asc +0 -0
  228. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/morphologies/swc/dend-jy180406_B_idC_axon-jy171019_B_10x_resta_idB_-_Scale_x1.000_y0.950_z1.000_-_Clone_1.swc +0 -0
  229. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/components/CircuitB/morphologies/swc/dend-jy180406_C_idB_axon-04752-04764-X11537-Y13753_final_-_Clone_3.swc +0 -0
  230. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/edges_AB.h5 +0 -0
  231. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/edges_AB.h5.txt +0 -0
  232. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/local_edges_A.h5 +0 -0
  233. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/local_edges_A.h5.txt +0 -0
  234. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/local_edges_B.h5 +0 -0
  235. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/local_edges_B.h5.txt +0 -0
  236. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/node_sets.json +0 -0
  237. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/nodes_A.h5 +0 -0
  238. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/nodes_A.h5.txt +0 -0
  239. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/nodes_B.h5 +0 -0
  240. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/nodes_B.h5.txt +0 -0
  241. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/circuit_sonata_quick_scx_multi_circuit/simulation_sonata.json +0 -0
  242. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/hippocampus_opt_cell_template/README.md +0 -0
  243. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/hippocampus_opt_cell_template/electrophysiology/cell.hoc +0 -0
  244. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/hippocampus_opt_cell_template/morphology/cell.asc +0 -0
  245. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/legacy_circuitconfig/CircuitConfig +0 -0
  246. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_bluepy/BlueConfig +0 -0
  247. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_bluepy/BlueConfig.SUCCESS +0 -0
  248. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_bluepy/output/out.dat +0 -0
  249. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_bluepy/output/out.h5 +0 -0
  250. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_bluepy/output/populations_offset.dat +0 -0
  251. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_bluepy/output/soma_SONATA.h5 +0 -0
  252. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_bluepy/user.target +0 -0
  253. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/circuit_sonata.json +0 -0
  254. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/output_sonata_hypamp/out.h5 +0 -0
  255. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/output_sonata_hypamp/populations_offset.dat +0 -0
  256. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/output_sonata_hypamp/soma.h5 +0 -0
  257. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/output_sonata_noinput/out.h5 +0 -0
  258. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/output_sonata_noinput/populations_offset.dat +0 -0
  259. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/output_sonata_noinput/soma.h5 +0 -0
  260. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/simulation_config.json.SUCCESS +0 -0
  261. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/simulation_config_hypamp.json +0 -0
  262. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/simulation_config_hypamp.json.SUCCESS +0 -0
  263. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/simulation_config_noinput.json +0 -0
  264. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata/simulation_config_noinput.json.SUCCESS +0 -0
  265. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/circuit_sonata.json +0 -0
  266. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_hypamp/out.h5 +0 -0
  267. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_hypamp/populations_offset.dat +0 -0
  268. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_hypamp/soma.h5 +0 -0
  269. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_noinput/out.h5 +0 -0
  270. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_noinput/populations_offset.dat +0 -0
  271. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_noinput/soma.h5 +0 -0
  272. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_ornstein/out.h5 +0 -0
  273. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_ornstein/populations_offset.dat +0 -0
  274. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_ornstein/soma.h5 +0 -0
  275. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_shotnoise/out.h5 +0 -0
  276. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_shotnoise/populations_offset.dat +0 -0
  277. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/output_sonata_shotnoise/soma.h5 +0 -0
  278. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/simulation_config_hypamp.json +0 -0
  279. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/simulation_config_noinput.json +0 -0
  280. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/simulation_config_ornstein.json +0 -0
  281. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sim_quick_scx_sonata_multicircuit/simulation_config_shotnoise.json +0 -0
  282. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/condition_parameters/circuit_sonata.json +0 -0
  283. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/condition_parameters/node_sets.json +0 -0
  284. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/condition_parameters/sim_conf/populations_offset.dat +0 -0
  285. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/condition_parameters/simulation_config.json +0 -0
  286. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/condition_parameters/simulation_config_many_inputs.json +0 -0
  287. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/projections/circuit_config.json +0 -0
  288. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/projections/echo +0 -0
  289. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/projections/node_sets.json +0 -0
  290. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/projections/output_sonata/out.h5 +0 -0
  291. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/projections/output_sonata/populations_offset.dat +0 -0
  292. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/projections/output_sonata/soma.h5 +0 -0
  293. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/projections/simulation_config.json +0 -0
  294. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/projections/simulation_config.json.SUCCESS +0 -0
  295. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/synapse_replay/circuit_config.json +0 -0
  296. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/synapse_replay/node_sets.json +0 -0
  297. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/synapse_replay/simulation_config.json +0 -0
  298. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/sonata_unit_test_sims/synapse_replay/synapse_replay.dat +0 -0
  299. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/tapertest_cells/notaper_cell.hoc +0 -0
  300. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/tapertest_cells/taper_cell.hoc +0 -0
  301. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/examples/tapertest_cells/test_cell.asc +0 -0
  302. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/helpers/__init__.py +0 -0
  303. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/helpers/os_utils.py +0 -0
  304. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/Ca.mod +0 -0
  305. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/CaDynamics_DC0.mod +0 -0
  306. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/CaDynamics_E2.mod +0 -0
  307. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/Ca_HVA.mod +0 -0
  308. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/Ca_HVA2.mod +0 -0
  309. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/Ca_LVAst.mod +0 -0
  310. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/DetAMPANMDA.mod +0 -0
  311. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/DetGABAAB.mod +0 -0
  312. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/GluSynapse.mod +0 -0
  313. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/Ih.mod +0 -0
  314. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/Im.mod +0 -0
  315. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/K_Pst.mod +0 -0
  316. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/K_Tst.mod +0 -0
  317. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/KdShu2007.mod +0 -0
  318. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/NaTa_t.mod +0 -0
  319. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/NaTg.mod +0 -0
  320. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/NaTs2_t.mod +0 -0
  321. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/Nap_Et2.mod +0 -0
  322. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/ProbAMPANMDA_EMS.mod +0 -0
  323. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/ProbGABAAB_EMS.mod +0 -0
  324. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/README.md +0 -0
  325. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/SK_E2.mod +0 -0
  326. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/SKv3_1.mod +0 -0
  327. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/StochKv.mod +0 -0
  328. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/StochKv3.mod +0 -0
  329. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/TTXDynamicsSwitch.mod +0 -0
  330. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/VecStim.mod +0 -0
  331. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/cacumm.mod +0 -0
  332. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/cacummb.mod +0 -0
  333. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/cagk.mod +0 -0
  334. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/cal2.mod +0 -0
  335. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/can2.mod +0 -0
  336. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/cat.mod +0 -0
  337. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/gap.mod +0 -0
  338. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/h.mod +0 -0
  339. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/kadist.mod +0 -0
  340. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/kaprox.mod +0 -0
  341. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/kca.mod +0 -0
  342. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/kd.mod +0 -0
  343. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/kd2.mod +0 -0
  344. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/kdb.mod +0 -0
  345. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/kdrbca1.mod +0 -0
  346. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/kdrca1.mod +0 -0
  347. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/km.mod +0 -0
  348. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/kmb.mod +0 -0
  349. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/na3n.mod +0 -0
  350. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/naxn.mod +0 -0
  351. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/mechanisms/netstim_inhpoisson.mod +0 -0
  352. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_bglib.py +0 -0
  353. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_cell/__init__.py +0 -0
  354. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_cell/test_cell_dict.py +0 -0
  355. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_cell/test_core.py +0 -0
  356. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_cell/test_injector.py +0 -0
  357. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_cell/test_random.py +0 -0
  358. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_cell/test_serialized_sections.py +0 -0
  359. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_cell/test_sonata_proxy.py +0 -0
  360. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_cell/test_stimuli_generator.py +0 -0
  361. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_cell/test_template.py +0 -0
  362. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_circuit/__init__.py +0 -0
  363. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_circuit/test_circuit_access.py +0 -0
  364. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_circuit/test_config_sections.py +0 -0
  365. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_circuit/test_format.py +0 -0
  366. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_circuit/test_node_id.py +0 -0
  367. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_circuit/test_simulation_access.py +0 -0
  368. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_circuit/test_simulation_config.py +0 -0
  369. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_circuit/test_synapse_properties.py +0 -0
  370. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_circuit/test_validate.py +0 -0
  371. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_exceptions.py +0 -0
  372. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_load.py +0 -0
  373. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_neuron_interpreter.py +0 -0
  374. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_rngsettings.py +0 -0
  375. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_simulation/__init__.py +0 -0
  376. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_simulation/test_simulation.py +0 -0
  377. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_ssim.py +0 -0
  378. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_ssim_sonata.py +0 -0
  379. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_stimuli.py +0 -0
  380. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_synapse.py +0 -0
  381. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_tools.py +0 -0
  382. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_ttx.py +0 -0
  383. {bluecellulab-1.3.6 → bluecellulab-1.3.8}/tox.ini +0 -0
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: bluecellulab
3
- Version: 1.3.6
3
+ Version: 1.3.8
4
4
  Summary: The Pythonic Blue Brain simulator access
5
5
  Home-page: https://github.com/BlueBrain/BlueCelluLab
6
6
  Author: Blue Brain Project, EPFL
@@ -39,7 +39,7 @@ BlueCelluLab
39
39
  +----------------+------------+
40
40
 
41
41
 
42
- Blue Brain Cellular Laboratory is designed for simulations and experiments on individual cells or groups of cells.
42
+ The Blue Brain Cellular Laboratory is designed for simulations and experiments on individual cells or groups of cells.
43
43
  Suitable use cases for BlueCelluLab include:
44
44
 
45
45
  * Scripting and statistical analysis for single cells or cell pairs.
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/README.rst RENAMED
@@ -20,7 +20,7 @@ BlueCelluLab
20
20
  +----------------+------------+
21
21
 
22
22
 
23
- Blue Brain Cellular Laboratory is designed for simulations and experiments on individual cells or groups of cells.
23
+ The Blue Brain Cellular Laboratory is designed for simulations and experiments on individual cells or groups of cells.
24
24
  Suitable use cases for BlueCelluLab include:
25
25
 
26
26
  * Scripting and statistical analysis for single cells or cell pairs.
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab/cell/core.py RENAMED
@@ -82,7 +82,7 @@ class Cell(InjectableMixin, PlottableMixin):
82
82
  neuron_template = NeuronTemplate(template_path, morphology_path)
83
83
  self.cell = neuron_template.get_cell(template_format, gid, emodel_properties)
84
84
 
85
- self.soma = [x for x in self.cell.getCell().somatic][0]
85
+ self.soma = self.cell.getCell().soma[0]
86
86
  # WARNING: this finitialize 'must' be here, otherwhise the
87
87
  # diameters of the loaded morph are wrong
88
88
  neuron.h.finitialize()
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/bluecellulab.egg-info/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: bluecellulab
3
- Version: 1.3.6
3
+ Version: 1.3.8
4
4
  Summary: The Pythonic Blue Brain simulator access
5
5
  Home-page: https://github.com/BlueBrain/BlueCelluLab
6
6
  Author: Blue Brain Project, EPFL
@@ -39,7 +39,7 @@ BlueCelluLab
39
39
  +----------------+------------+
40
40
 
41
41
 
42
- Blue Brain Cellular Laboratory is designed for simulations and experiments on individual cells or groups of cells.
42
+ The Blue Brain Cellular Laboratory is designed for simulations and experiments on individual cells or groups of cells.
43
43
  Suitable use cases for BlueCelluLab include:
44
44
 
45
45
  * Scripting and statistical analysis for single cells or cell pairs.
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/tests/test_ballstick.py RENAMED
@@ -123,9 +123,9 @@ def run_pyneuron_with_template(params):
123
123
 
124
124
  bluecellulab.neuron.h.load_file(params.templatefile)
125
125
  cell = bluecellulab.neuron.h.ballstick_cell(0, params.morphfile)
126
- basal = [x for x in cell.getCell().basal]
127
- soma = [x for x in cell.getCell().somatic][0]
128
- syn = bluecellulab.neuron.h.ExpSyn(params.SYN_LOC, sec=basal[0])
126
+ basal = cell.getCell().dend[0]
127
+ soma = cell.getCell().soma[0]
128
+ syn = bluecellulab.neuron.h.ExpSyn(params.SYN_LOC, sec=basal)
129
129
  syn.tau = params.SYN_DECAY
130
130
  syn.e = params.SYN_E
131
131
  ns = bluecellulab.neuron.h.NetStim()
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/.gitignore RENAMED
File without changes
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/.zenodo.json RENAMED
File without changes
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/AUTHORS.txt RENAMED
File without changes
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/CHANGELOG.rst RENAMED
File without changes
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/LICENSE RENAMED
File without changes
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/MANIFEST.in RENAMED
File without changes
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/Makefile RENAMED
File without changes
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/Makefile RENAMED
File without changes
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/docs/make.bat RENAMED
File without changes
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/setup.cfg RENAMED
File without changes
{bluecellulab-1.3.6 → bluecellulab-1.3.8}/setup.py RENAMED
File without changes