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Merge branch 'suny-downstate-medical-center:master' into master
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‎.github/ISSUE_TEMPLATE/bug_report.md‎

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---
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name: Bug report
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about: Create a bug report to help us improve NetPyNE
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title: "[Bug report]"
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labels: bug
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assignees: ''
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---
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**Describe the bug**
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A clear and concise description of what the bug is.
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**Reproducing the bug**
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Steps to reproduce the behavior:
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1. Go to '...'
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2. Click on '....'
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3. Scroll down to '....'
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4. See error
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**Expected behavior**
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A clear and concise description of what you expected to happen.
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**System information**
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- OS and version: [e.g. iOS 10.14.6]
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- NetPyNE version: [e.g. 0.9.5 (see `CHANGES.md` for version)]
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- NEURON version: [e.g. 7.6.4 (run `nrniv --version` in terminal for version)]
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- Python version: [e.g. 3.7.0 (run `python --version` in terminal for version)]
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**Additional context**
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Add any other context about the problem here.

‎.github/ISSUE_TEMPLATE/documentation-improvement.md‎

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---
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name: Documentation Improvement
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about: Submit an issue to improve NetPyNE's documentation
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title: "[documentation]"
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labels: documentation
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assignees: ''
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---
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**Please describe the documentation improvement you'd like to see.**
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A clear and concise description of desired documentation improvement for a specific function, a process, a tutorial, or even a simple typo.

‎.github/ISSUE_TEMPLATE/feature_request.md‎

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---
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name: Feature request
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about: Suggest an idea for a new feature in NetPyNE
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title: "[New feature]"
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labels: enhancement
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assignees: ''
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---
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**Please describe the new feature you'd like to see.**
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A clear and concise description of the new feature and its benefits.
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**Is your feature request related to a problem? Please describe.**
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A clear and concise description of what the problem is. E.g.: I'm always frustrated when [...]
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**Describe the solution you'd like**
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A clear and concise description of what you want to happen.
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**Describe alternatives you've considered**
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A clear and concise description of any alternative solutions or features you've considered.
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**Additional context**
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Add any other context or screenshots about the feature request here.

‎.github/ISSUE_TEMPLATE/other-issues.md‎

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---
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name: Other issues
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about: Submit an issue that doesn't fall into the other categories
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title: "[other]"
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labels: ''
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assignees: ''
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---
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**Please describe your issue**
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A clear and concise description of your issue.

‎.github/ISSUE_TEMPLATE/question.md‎

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---
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name: Question
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about: Submit a question about NetPyNE
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title: "[question]"
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labels: question
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assignees: ''
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---
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**Please ask a question about NetPyNE**
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A clear and concise question about any aspect of NetPyNE.

‎.github/workflows/ebrains-mirror.yml‎

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name: Mirror to Ebrains
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# Configure the events that are going to trigger tha automated update of the mirror
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on:
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push:
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branches: [ master ]
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# Configure what will be updated
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jobs:
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# set the job name
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to_ebrains:
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runs-on: ubuntu-latest
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steps:
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# this task will push the master branch of the source_repo (github) to the
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# destination_repo (ebrains gitlab)
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- name: syncmaster
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uses: wei/git-sync@v3
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# component owners need to set their own variables
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# the destination_repo format is
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# https://gitlab_service_account_name:${{ secrets.EBRAINS_GITLAB_ACCESS_TOKEN }}@gitlab.ebrains.eu/name_of_mirror.git
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with:
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source_repo: "suny-downstate-medical-center/netpyne"
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source_branch: "master"
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destination_repo: "https://github-pusher:${{ secrets.EBRAINS_GITLAB_ACCESS_TOKEN }}@gitlab.ebrains.eu/vbragin/netpyne.git"
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destination_branch: "master"
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# this task will push all tags from the source_repo to the destination_repo
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- name: synctags
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uses: wei/git-sync@v3
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with:
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source_repo: "suny-downstate-medical-center/netpyne"
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source_branch: "refs/tags/*"
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destination_repo: "https://github-pusher:${{ secrets.EBRAINS_GITLAB_ACCESS_TOKEN }}@gitlab.ebrains.eu/vbragin/netpyne.git"
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destination_branch: "refs/tags/*"

‎.github/workflows/tests.yml‎

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name: Tests
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on: [push, pull_request]
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jobs:
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Run-Tests:
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runs-on: ${{ matrix.os }}
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strategy:
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matrix:
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os: [ubuntu-latest]
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#python-version: [2.7, 3.7]
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python-version: ["3.7", "3.8", "3.9", "3.10", "3.11"]
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fail-fast: false
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steps:
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- name: Check out repository code
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uses: actions/checkout@v4
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- name: Set up Python ${{ matrix.python-version }}
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uses: actions/setup-python@v4
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with:
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python-version: ${{ matrix.python-version }}
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- name: Update apt-get
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run: sudo apt-get update
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- name: Install packages
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run: sudo apt-get install python-tk python3-tables
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- name: Install dependencies
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run: |
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python -m pip install --upgrade pip
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pip install -r requirements.txt
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pip install -e .
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- name: Info on installed package versons
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run: |
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pip list
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- name: Test with pytest
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run: |
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source tests/test.sh

‎.gitignore‎

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/doc/source/netpyne.*.rst
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doc/source/package_reference.rst
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/examples/sandbox/LEMS_sandbox.xml
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/examples/M1/LEMS_M1.xml
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*.dll
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umac
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.DS_Store
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venv/
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/examples/HybridTut/*.nml
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/examples/HybridTut/*.mod
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/examples/M1/*.png
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/examples/M1/*.pov
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/examples/HHTut/temp.json
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.vscode
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/examples/HHTut/HHTut_plot_2Dnet.png
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/examples/HHTut/HHTut_regen.py
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/examples/HHTut/HHTut_traces.png
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.idea/
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examples/asdOptim/simple/
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*.pid
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examples/optunaOptim/simple/
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/examples/NeuroMLImport/test/HHTut.net.nml
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/examples/NeuroMLImport/test/HybridTut.net.nml
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/examples/NeuroMLImport/test/LEMS_HHTut.xml
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/examples/NeuroMLImport/test/LEMS_HybridTut.xml
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/examples/NeuroMLImport/test/M1.net.nml
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/examples/NeuroMLImport/test/LEMS_M1.xml
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arm64

‎.travis.yml‎

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