Software

FZJ-2023-01170

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png Arbor Library v0.8.1

Akar, N. A. ; Biddiscombe, J. ; Cumming, B. ; Kabic, M. ; Karakasis, V. ; Klijn, W.FZJ* ; Küsters, A.FZJ* ; Peyser, A.FZJ* ; Yates, S. ; Hater, T.FZJ* ; Huisman, B. (Corresponding author)FZJ* ; Hagen, E. ; Schepper, R. D. ; Linssen, C.FZJ* ; Stoppels, H. ; Schmitt, S. ; Huber, F. ; Engelen, M. ; Bösch, F. ; Luboeinski, J. ; Frasch, S. ; Drescher, L. ; Landsmeer, L.FZJ*

2022

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Please use a persistent id in citations: doi:10.5281/ZENODO.7473671

Abstract: # v0.8.1   ** 2022 12 20 **   A 🎄 holiday release! Not much has changed in a month, but we'd like to share it all the same. Notably, the [Arbor GUI](https://github.com/arbor-sim/gui/) [is co-released](https://github.com/arbor-sim/gui/releases/tag/v0.8) as of Arbor v0.8, and v0.8.1 will be no different.   ## Major new features   - Voltage Processes: add the VOLTAGE_PROCESS mechanism kind to modcc, allowing for direct writing to the membrane voltage (#2033) - Spack gpu option: added conditional variant for cuda builds to enable GPU-based random number generation (#2043) - SDE Tutorial (#2044)   ## Breaking changes since v0.7   - None 💃!   ## Bug fixed   - Fix ornstein_uhlenbeck example on gpu (#2039) - Setting ARB_MODCC was broken and nunfunctional. Fixed. (#2029) - The `--cxx` flag in `arbor-build-catalogue` is now properly used; falls back to `c++`. (#2051)   ## Full commit log   * Post release: add Zenodo entry, add Spack entry, update docs and scripts by @brenthuisman in https://github.com/arbor-sim/arbor/pull/2036 * BUGFIX: add ARB_CUDA flag to example catalogue by @boeschf in https://github.com/arbor-sim/arbor/pull/2039 * Additional builtin functions to Arbor's NMODL dialect by @boeschf in https://github.com/arbor-sim/arbor/pull/2035 * Throw better errors when we cannot look up ion diffusivity by @thorstenhater in https://github.com/arbor-sim/arbor/pull/2040 * ⚡ Voltage Processes by @thorstenhater in https://github.com/arbor-sim/arbor/pull/2033 * simplify make catalogue by @boeschf in https://github.com/arbor-sim/arbor/pull/2042 * spack gpu option by @boeschf in https://github.com/arbor-sim/arbor/pull/2043 * Remove deprecated spike_detector. by @thorstenhater in https://github.com/arbor-sim/arbor/pull/2041 * make ARB_MODCC functional again by @brenthuisman in https://github.com/arbor-sim/arbor/pull/2029 * Yank v0.5 from Spack file, it does not build due to change in setting arch by @brenthuisman in https://github.com/arbor-sim/arbor/pull/2037 * Use pugixml instead of libxml2 by @thorstenhater in https://github.com/arbor-sim/arbor/pull/2048 * [BUGFIX] a-b-c: actually set compiler, improved default by @brenthuisman in https://github.com/arbor-sim/arbor/pull/2051 * Sde Tutorial by @boeschf in https://github.com/arbor-sim/arbor/pull/2044 * Set Python to known version for all CI workflows by @brenthuisman in https://github.com/arbor-sim/arbor/pull/2058 * consistent mechanism ids by @boeschf in https://github.com/arbor-sim/arbor/pull/2057 * Fix docs about exprelr. by @thorstenhater in https://github.com/arbor-sim/arbor/pull/2064 * Allow __ in profiler names. by @thorstenhater in https://github.com/arbor-sim/arbor/pull/2065 * CI fixes for wheel building, prep for musllinux, Spack by @brenthuisman in https://github.com/arbor-sim/arbor/pull/2069

Keyword(s): neuroscience ; computational neuroscience ; morpholically detailed simulator

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Contributing Institute(s):

1. Jülich Supercomputing Center (JSC)

Research Program(s):

1. 5111 - Domain-Specific Simulation & Data Life Cycle Labs (SDLs) and Research Groups (POF4-511) (POF4-511)
2. SLNS - SimLab Neuroscience (Helmholtz-SLNS) (Helmholtz-SLNS)

Appears in the scientific report 2022

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