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Non-contiguous subgroups#1229

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mstimberg wants to merge 68 commits intomasterbrian-team/brian2:masterfrom non_contiguous_subgroupbrian-team/brian2:non_contiguous_subgroupCopy head branch name to clipboard

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Commits on Sep 11, 2020

• WIP: First steps to generalize subgroups to be non-contiguous

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  604e633

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• Update SpikeMonitor for non-contiguous subgroups

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• Sort indices before their use in Subgroup

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• Fix logic error in Cython/C++ SpikeMonitor code

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• Make PopulationRateMonitor work with non-contiguous subgroups

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• Add subgroups test for StateMonitor

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• Fix subgroups of SpatialNeuron

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• Forbid using non-contiguous subgroups in Synapses

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• Enable string expressions for subgroups

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• Make string expressions for subgroups/indexing work in standalone

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• Fix string indexing with references to external constants

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Commits on Sep 14, 2020

• Make doctest compatible with Windows output for 32bit ints

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• Do not allow unsorted indices in subgroups

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Commits on Jan 4, 2021

• Merge branch 'master' into non_contiguous_subgroup

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Commits on Feb 22, 2021

• Merge branch 'master' into non_contiguous_subgroup

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Commits on Apr 21, 2021

• Merge branch 'master' into non_contiguous_subgroup

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• Fix a remaining case of a deprecated numpy scalar

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Commits on Feb 8, 2022

• Merge remote-tracking branch 'origin/master' into non_contiguous_subgroup

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Commits on Feb 9, 2022

• Merge branch 'master' into non_contiguous_subgroup

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Commits on Apr 29, 2022

• Merge remote-tracking branch 'origin/master' into non_contiguous_subgroup

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Commits on May 2, 2022

• minor optimization for non-contiguous subgroups

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• make PoissonGroup work with non-contiguous subgroups

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• make SpikeMonitor generated code deterministic

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• Check for illegal subgroup indices in consistent way

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• Merge branch 'non_contiguous_subgroup' of github.com:brian-team/brian2 into non_contiguous_subgroup

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• revert run_tests script to original version

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• Add/update tests for subgroups

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Commits on Jun 8, 2022

• Merge branch 'master' into non_contiguous_subgroup

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Commits on Oct 19, 2022

• Merge branch 'master' into non_contiguous_subgroup

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Commits on Nov 10, 2022

• Update documentation for non-contiguous subgroups

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• Some more basic tests for incorrect subgroup creation

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• Merge branch 'master' into non_contiguous_subgroup

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Commits on Nov 14, 2022

• Fix exception type in subgroup tests

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• Test+doc for non-contiguous indices in SpatialNeuron

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Commits on Nov 22, 2022

• Merge branch 'master' into non_contiguous_subgroup

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  209d239

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• Remove deprecated usage of np.bool

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Commits on Mar 23, 2023

• Fragile but basic working version of SynapticSubgroup

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Commits on Mar 24, 2023

• Merge branch 'master' into non_contiguous_subgroup

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  6f84542

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• Remove unnecessary imports

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• Add tests for synaptic subgroups

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• Support array indexing for multi-synaptic indices

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Commits on Mar 29, 2023

• Refactor Group.Indexing for better readability

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• Add new tests for synaptic subgroups

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Commits on Mar 30, 2023

• Small refactoring for synaptic indexing

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Commits on Mar 31, 2023

• Fix a test

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• Write sizes of dynamic arrays to disk after run in standalone mode

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Commits on Apr 7, 2023

• Simplify RateMonitor template for non-contiguous subgroup

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• Minor reformatting in test

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Commits on Apr 19, 2023

• Fail for out-of-range 1d array indices in Synapses

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Commits on Apr 20, 2023

• Handle scalar synaptic indices correctly

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• Raise errors for boolean indices of incorrect shape

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• Handle IndexErrors correctly for synapses as well

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• Install coveralls with pip everywhere

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Commits on Jun 15, 2023

• Merge branch 'master' into non_contiguous_subgroup

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• Fix incorrect merge

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Commits on Oct 6, 2023

• Merge remote-tracking branch 'origin/master' into non_contiguous_subgroup

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Commits on Oct 26, 2023

• Do not force float64 in TimedArray

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• Invalidate caches on each run

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• Merge remote-tracking branch 'origin/master' into non_contiguous_subgroup

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Commits on Oct 30, 2023

• Fix cache invalidation

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• Correctly the return type of TimedArray functions in generated code

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Commits on Nov 2, 2023

• WIP: Allow non-contiguous subgroups for synapses

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Commits on Nov 14, 2023

• Allow non-contiguous subgroups for synapses

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• Non-contiguous subgroups for synapses: summed variables

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Commits on Nov 16, 2023

• Test summed variable error for overlapping subgroups

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Commits on Sep 13, 2024

• Merge branch 'master' into non_contiguous_subgroup

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• minor fixes

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• Re-add write sizes of dynamic arrays to disk

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