dbbs-lab/bsb issues and pull requests

#765 - Add venv to gitignore

Pull Request - State: closed - Opened by filimarc about 1 year ago - 1 comment

#764 - Revert feedback text variable removing.

Pull Request - State: closed - Opened by drodarie about 1 year ago - 1 comment

#763 - Redo of connectivity rule removes also placement

Issue - State: closed - Opened by drodarie about 1 year ago

#762 - Rework on packing factor in Particle placement.

Pull Request - State: closed - Opened by drodarie about 1 year ago - 1 comment

#761 - Improve user error feedback for placement and connectivity

Issue - State: open - Opened by drodarie about 1 year ago
Labels: enhancement

#760 - 'generator' object is not subscriptable

Issue - State: closed - Opened by bluechrysis about 1 year ago - 2 comments

#759 - Reproducibility - Fix random seed on bsb

Issue - State: open - Opened by drodarie about 1 year ago
Labels: enhancement

#758 - Simulation

Pull Request - State: open - Opened by Helveg about 1 year ago

#755 - Barrel cortex workflow issues

Issue - State: open - Opened by shimoura about 1 year ago

#754 - Compiling fails

Issue - State: closed - Opened by francesshei about 1 year ago - 1 comment

#753 - Fix issue 752

Pull Request - State: closed - Opened by Helveg about 1 year ago - 1 comment

#752 - Cannot `redo` scaffold

Issue - State: closed - Opened by francesshei about 1 year ago - 1 comment

#751 - Add delete_point for morphology branch.

Pull Request - State: closed - Opened by drodarie about 1 year ago - 1 comment

#750 - Make RoI implementations optional

Pull Request - State: closed - Opened by Helveg about 1 year ago - 1 comment

#749 - Connectivity bug

Issue - State: closed - Opened by francesshei about 1 year ago - 1 comment
Labels: bug, topic.connectivity, hdf5

#748 - Better configuration nodes and attributes documentation

Issue - State: open - Opened by francesshei about 1 year ago
Labels: documentation

#747 - Cannot compile scaffold with latest main

Issue - State: closed - Opened by francesshei over 1 year ago - 2 comments

#746 - Fix/str safe

Pull Request - State: closed - Opened by drodarie over 1 year ago - 1 comment

#745 - Fix/entities

Pull Request - State: closed - Opened by drodarie over 1 year ago - 1 comment

#744 - "count_ratio" placement does not work when parent placement is "density_key"

Issue - State: closed - Opened by drodarie over 1 year ago

#743 - Add function to update MorphologyRepository metadata. Use this functi…

Pull Request - State: closed - Opened by drodarie over 1 year ago - 1 comment

#742 - Add missing signatures for the MorphologyRepository metadata access.

Pull Request - State: closed - Opened by drodarie over 1 year ago

#741 - Support for saving SWC with custom tags

Pull Request - State: open - Opened by Helveg over 1 year ago - 1 comment

#740 - Dot diagrams

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#739 - Fix numpy arrays in `JsonParser.generate`, add `format_content` utility

Pull Request - State: closed - Opened by Helveg over 1 year ago

#738 - ERROR: 'NestAdapter' object has no attribute 'is_prepared'

Issue - State: closed - Opened by LorenzoDeToni over 1 year ago - 19 comments

#737 - MorphologyDependencyNode tags values can be casted both as str or list of str.

Issue - State: closed - Opened by drodarie over 1 year ago - 3 comments

#736 - Morphologies metadata in multi-core is overwritten during placement

Issue - State: closed - Opened by drodarie over 1 year ago

#735 - Add morphology loader function for Hemitypes.

Pull Request - State: closed - Opened by drodarie over 1 year ago - 1 comment

#734 - Multiple `$import` statements in JSON seems broken

Issue - State: open - Opened by Helveg over 1 year ago

#733 - Update morphology metadata only once after saving the entire MS

Pull Request - State: closed - Opened by Helveg over 1 year ago

#732 - Constrain voxelization based on resolution instead of number of voxels

Issue - State: open - Opened by Helveg over 1 year ago

#731 - Sporadic test failures due to empty Allen atlas cache

Issue - State: open - Opened by Helveg over 1 year ago - 2 comments

#730 - Move to new `importlib.metadata` API for plugins

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#729 - Add `InvertedRoI` mixin and `FixedIndegree` strategy

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#727 - Add tags to the loading of morphologies.

Pull Request - State: closed - Opened by drodarie over 1 year ago - 1 comment

#726 - Neuron v4

Pull Request - State: open - Opened by alessiomarta over 1 year ago - 3 comments

#725 - Make sure that user supplied requirement functions are always checked

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#724 - Fix upperase character in NM scheme

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#723 - Error while changing parameter values

Issue - State: closed - Opened by EleonoraLupi over 1 year ago - 2 comments

#722 - Fix subtle plotting bug with cubic and swapaxes interaction

Pull Request - State: closed - Opened by llandsmeer over 1 year ago - 1 comment

#721 - Sin wave current stimulus [v3.last] proposal

Issue - State: closed - Opened by SimoneTorsello over 1 year ago - 3 comments

#720 - Issue to run with Nest in ebrains Jupyterlab

Issue - State: closed - Opened by ddadep over 1 year ago - 3 comments

#719 - `report` takes a millisecond

Issue - State: open - Opened by Helveg over 1 year ago

#718 - Update to `requests~=2.30` and `urllib3~=2.0`, use sessions for ciphers

Pull Request - State: closed - Opened by Helveg over 1 year ago

#717 - Fix unmanaged partitions not being laid out

Pull Request - State: closed - Opened by Helveg over 1 year ago

#716 - Memory consumption increase during placement

Issue - State: closed - Opened by drodarie over 1 year ago - 5 comments

#715 - bsb 3.9 throws "Module cerebmodule not found"

Issue - State: closed - Opened by RobertaMLo over 1 year ago - 1 comment

#714 - Partial load of morphologies during placement

Issue - State: closed - Opened by drodarie over 1 year ago - 8 comments

#713 - nest issue in bsbv3

Issue - State: closed - Opened by RobertaMLo over 1 year ago - 11 comments

#712 - Include NEURON based config in unit tests

Issue - State: open - Opened by Helveg over 1 year ago

#711 - Added tags-labels association in config file

Pull Request - State: closed - Opened by alessiomarta over 1 year ago - 1 comment

#710 - Error when installing on ebrains jupyterlab

Issue - State: closed - Opened by alberto-antonietti over 1 year ago - 4 comments

#709 - Automatic documentation generation for configuration nodes

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#708 - Fixed `MorphologySet` chunk overlap

Pull Request - State: closed - Opened by Helveg over 1 year ago

#707 - Fixed FileNotFoundErrors with the files in store

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#706 - Lazy load the network topology once it is needed

Issue - State: closed - Opened by Helveg over 1 year ago - 2 comments
Labels: needs.thinking

#705 - Fix plotting of empty morphology with `set_range`

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#704 - Fix NameSelector inversion

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#703 - Try to sanitize `rotation` input as euler degrees Rotation

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#702 - Added `detach` method to branch

Pull Request - State: closed - Opened by Helveg over 1 year ago - 1 comment

#701 - MorphologySet merges all different morphologies to an all zero set

Issue - State: closed - Opened by Helveg over 1 year ago

#700 - FileNotFoundError with file in store

Issue - State: closed - Opened by Helveg over 1 year ago

#699 - Rudimentary NEST 3 adapter

Pull Request - State: open - Opened by Helveg over 1 year ago - 2 comments

#698 - Shape collection connectivity

Pull Request - State: open - Opened by drodarie over 1 year ago - 5 comments

#697 - Extend root_rotate to allow rotation from a point of the subtree

Pull Request - State: closed - Opened by drodarie over 1 year ago - 1 comment

#696 - Add YAML

Pull Request - State: closed - Opened by drodarie over 1 year ago - 1 comment

#695 - Improve `PlacementSet.label` docstring, in `bsb.storage.interfaces`

Issue - State: open - Opened by francesshei over 1 year ago - 1 comment

#694 - Neuron segfault running simulation on single core

Issue - State: closed - Opened by alessiomarta over 1 year ago - 2 comments

#693 - Simulation phase design issue restricts ConnModel one-to-one to ConnSet

Issue - State: open - Opened by Helveg over 1 year ago - 1 comment
Labels: needs.thinking

#692 - TransmitterError: A transmitter already exists

Issue - State: open - Opened by alessiomarta over 1 year ago - 2 comments

#691 - Operator < not supported between instances of 'TransceiverModel' and 'TransceiverModel'

Issue - State: open - Opened by alessiomarta over 1 year ago - 6 comments

#690 - Can't pickle network object

Issue - State: open - Opened by Helveg over 1 year ago

#689 - RequirementError and CastErrors inside `simulation` bubbled up to wrong node

Issue - State: open - Opened by Helveg over 1 year ago

#688 - Autogenerate and package a JSON schema

Issue - State: open - Opened by Helveg over 1 year ago - 1 comment

#687 - Feature/specific annotations

Pull Request - State: closed - Opened by drodarie almost 2 years ago - 1 comment

#686 - a49 - Morphology pipelines

Pull Request - State: closed - Opened by Helveg almost 2 years ago - 1 comment

#685 - Added node composition

Pull Request - State: closed - Opened by Helveg almost 2 years ago - 3 comments

#684 - PlacementIndicator.guess throws an exception for Entities with density relation

Issue - State: open - Opened by drodarie almost 2 years ago

#683 - Entities.place: Exception due to counts

Issue - State: closed - Opened by drodarie almost 2 years ago

#682 - MPI: Exception during placement

Issue - State: closed - Opened by drodarie almost 2 years ago - 1 comment

#681 - Add config.property type validation

Issue - State: open - Opened by drodarie almost 2 years ago - 4 comments

#680 - added euclidian dists

Pull Request - State: closed - Opened by igorcantele almost 2 years ago - 1 comment

#679 - New feature: Circuit based on modified allen annotation volume

Issue - State: closed - Opened by drodarie almost 2 years ago - 5 comments

#678 - Allow orientations of cells without morphologies

Issue - State: closed - Opened by Helveg almost 2 years ago - 1 comment

#677 - Feature/orientations

Pull Request - State: closed - Opened by drodarie almost 2 years ago - 1 comment

#676 - RotationSet does not accept all expected inputs.

Issue - State: closed - Opened by drodarie almost 2 years ago - 3 comments

#675 - File dependencies & csv import

Pull Request - State: closed - Opened by Helveg almost 2 years ago

#674 - Feature/orientations

Pull Request - State: closed - Opened by drodarie almost 2 years ago - 7 comments

#673 - Distributors expect morphologies even when it is not required.

Issue - State: closed - Opened by drodarie almost 2 years ago - 1 comment

#672 - The orientation of the x,y,z axes employed by BSB is not a left-handed orientation

Issue - State: open - Opened by alessiomarta almost 2 years ago - 3 comments

#671 - Deploy to EBRAINS

Pull Request - State: closed - Opened by Helveg almost 2 years ago - 1 comment

#670 - Reinstate postprocessing steps

Issue - State: open - Opened by Helveg almost 2 years ago

#669 - Simulation

Pull Request - State: closed - Opened by Helveg almost 2 years ago - 1 comment

#668 - Simulation data transfer

Issue - State: open - Opened by Helveg almost 2 years ago

#667 - Corrected `scipy.Rotation` in `Morphologies` documentation

Pull Request - State: closed - Opened by igorcantele almost 2 years ago - 1 comment

#666 - NEST adapter failed initialization

Issue - State: closed - Opened by CarloAS almost 2 years ago - 1 comment

#665 - Adds `NotParallel` and uses it for `ParallelArray`

Pull Request - State: closed - Opened by alessiomarta almost 2 years ago - 1 comment

#664 - Chunk eq errors when comparing objects to it

Issue - State: open - Opened by Helveg almost 2 years ago

#663 - Regression: dynamic subclass needs to specify dynamic attribute

Issue - State: closed - Opened by Helveg almost 2 years ago

GitHub / dbbs-lab/bsb issues and pull requests