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  1. Aug 19, 2021
  2. Aug 17, 2021
  3. Aug 16, 2021
  4. Aug 10, 2021
  5. Aug 02, 2021
    • thorstenhater's avatar
      Bug/assorted static analysis (#1615) · fa63f8c3
      thorstenhater authored
      * Fix failure to return value in `py_mech_cat_value_iterator `.
      * String butchered by formatting.
      * Join unnecessary separation of string literals in `arborio/cabelio.cpp`
      * Add missing throw in s_expr code.
      * Return value, not reference, in `merge_iterator::operator++(int)`.
      * Check for self-assignment in `mechanism_catalogue`.
      * Initialize all members of `mechanism`.
      * Fix index check order in `multi_event_stream` debug output.
      * Use coordinator_ from base class in `memory::array`.
    • Brent Huisman's avatar
      Docs mechabi (#1610) · 79450573
      Brent Huisman authored
      * Bit of review on the copy of the mech abi docs.
      * Convert api/abi docs to C Domain directives.
  6. Jul 29, 2021
  7. Jul 27, 2021
  8. Jul 23, 2021
  9. Jul 05, 2021
  10. Jul 02, 2021
  11. Jun 29, 2021
    • thorstenhater's avatar
      Fix GPU compile. (#1601) · ca254d15
      thorstenhater authored
    • thorstenhater's avatar
      Add S-Exp for CV Policies (#1511) · a297ff44
      thorstenhater authored
      1. All s-exp parsing has migrated to `arborio`
      2. CV policies can now be read from string as per #1334. This is needed for the GUI project.
      2. No longer can `arb::locset` and `arb::region` be constructed from mere strings
      2. We have `arborio::literals` to construct `region`s, `locset`s, and `cv_policy`s in the form of `_rg`, `_ls`, and `_cvp`.
      3. The `_lab` suffix now constructs an object that converts to `named` morphologies, rather than a simple string.
      4. Constructors of `region` and `locset` are now properly guarded
      5. Consequently, a lot of missing inheritance from `region_tag` and `locset_tag` was retrofitted.
      
      Closes #1334 
      Closes #1419 
  12. Jun 25, 2021
  13. Jun 24, 2021
  14. Jun 23, 2021
  15. Jun 22, 2021
  16. Jun 21, 2021
    • Nora Abi Akar's avatar
      Fix stack overflow bug in the task system (#1583) · 8afe2594
      Nora Abi Akar authored
      
      * Turn each task queue in the task system into a finite set of queues of increasing priority. The number of queues is a compile-time constant, currently two.
      * When a task of priority higher than that of the highest priority queue is scheduled, execute it synchronously.
      * When scheduling tasks in a task group, use a priority one higher than that of the calling task; when waiting on the task group, work only on tasks with this priority or higher. This is sufficient to avoid the deep recursion issue seen in issue #1570.
      
      Fixes #1570.
      Co-authored-by: default avatarSam Yates <yates@cscs.ch>
  17. Jun 18, 2021
    • thorstenhater's avatar
      Fix SEGV in simulation with default `cable_cell` (#1543) · 250cce4f
      thorstenhater authored
      * Skip relevant corner cases in the matrix solver.
      * Minor clean-ups in `make_span`.
      * Add regression test for bug, additional unit tests for `span` and `make_span`.
      
      Closes #1540.
    • Nora Abi Akar's avatar
      Labels instead of indices for placeable item identfication. (#1504) · e0e18976
      Nora Abi Akar authored
      New structs and types:
      * `cell_tag_type` (std::string): for labelling placeable items on a cell. The label refers to a number of items placed on a locset, equal to the number of locations in a locset. The number of locations in not always known to the user, so the previous way of using indices for items was no longer sufficient. 
      * `lid_selection_policy`: for allowing a user to select a single item from a group of items sharing a label. Currently only `round_robin` and `assert_univalent` are supported. 
      * `cell_local_label_type` and `cell_global_label_type`: for identifying the target and source of a connection or gap_junction connection. 
      * `cell_label_ranges`, and `cell_labels_and_gids`: for propagating information about the labelled items on the cell from the cell groups back to the simulation and communicator. 
      * `label_resolution_map` and `resolver`: for selecting an item (and retaining state) from a labelled group of items on a cell according to a user-selected policy.
      
      Changes to the model-initialization: 
      * The `communicator` now needs `label_resolution_maps` constructed from the cell group data in order to build the `connections` vectors. 
      * The `simulation_state` object handles the transfer of the information when it is constructed. 
      * Spike exchange at runtime remains unchanged, because `communicator::connections` remains unchanged. 
      
      Changes to cells, cell_groups and recipe:
      * `decor::place` expects a third label parameter, no longer returns an `lid_range`.
      * `lif`, `source`, and `benchmark` cells need source/target labels in their constructors. 
      * A `cell_group` needs to save data about the gid/labels/lid_ranges of each cell, to propagate back to the `communicator` constructor. 
      * Connections/gap junction connections are formed between {label, policy} pairs on cells instead of indices. 
      * `num_sources`, `num_targets`, `num_gap_junction_sites` deleted from `recipe`.
      
      Additional changes:
      * Add MPI wrapper for exchanging vectors of strings. 
      * Corresponding updates to unit tests, Python wrapper, C++ and Python examples, documentation.
      
      Fixes #1394
  18. Jun 16, 2021
  19. Jun 08, 2021
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  22. May 31, 2021