LFPy/hybridLFPy: hybridLFPy-0.2

hybridLFPy-0.2

Feature/bugfix release candidate which:

• adds support for Python 3 (3.7>=)
• unsupports Python 2
• supports LFPy-2.2
• examples using NEST-3.0
• automates certain actions on GitHub.com

The following changes since https://github.com/INM-6/hybridLFPy/releases/tag/v0.1.3 has been incorporated: c46f16e (HEAD -> master, tag: v0.2, origin/master, origin/HEAD) release 0.2 (#66) e68806c (tag: v0.2rc4) long_description_content_type (#65) c81d276 (tag: v0.2rc3) more consistent markup use, add toc to html docs (#64) d127f01 (tag: v0.2rc2) hope PyPI.org may parse MD properly (#63) 534fa96 (tag: v0.2rc1) add numpy and Cython to python-publish action (#62) 76a8d98 (tag: v0.2rc0) Fix Dockerfiles (#61) c341852 bump version number to v0.2rc0 (#59) bd8bb9c Add Dockerfile info to README etc. (#58) eba6e49 Removed Lintly badge 5f32a75 run flake8 checks before pytest (#55) ee19dad fix stale file (#54) 1e74865 PEP8 formatting (#53) 218e0a2 (fix-11) Add template files etc. (#52) 4f865f1 Add stale action for Issues/PRs (#50) e0cf627 adding status badges, online doc fixes (#49) 9565e2e set xticks (#48) fc460bf added missing scaling figure 086fa2a Update simulation codes for Nest v3.0 (#9) aec00dc (origin/legacy, legacy) Create python-publish.yml 8c656f0 readthedocs (#25) 47275fa Merge pull request #16 from INM-6/ci fdea3cd Merge pull request #8 from INM-6/lfpy2.1 55a46d6 add badge 9ad6348 add conda-forge ffd339d travisCI files 3425ef4 added some requirements stuff 605f0fd add pip requirements file 8872046 Merge pull request #7 from INM-6/LFPy_dev 3c36e02 fix df590c4 fix for NEST 2.20 73fbe65 ignore macos files aafa402 conda env file for hybridLFPy f8b9045 updated to run w. NEST 2.20 f41451d version file a5ee010 fixed brunel example w. nest 2.20 and lfpy 2.1 ac5b452 fix h5py deprecation warning b99c00b h5py deprecated value attribute 1a6d21e updated microcircuit examples with parameter th_spike_generator_times 22ba172 Merge branch 'LFPy_dev' into spikegens 4c19636 Merge branch 'master' into LFPy_dev e10a665 couple of print statements 0f1bfb2 fixes for python2 410d6c0 fixed sim script and plotting for figure 13 6365e3d python3 and matplotlib fixes to figure-generating scripts e154323 fix networkSimParams dict ecc1168 ntasks = 400 9fdde2c fixed LFPy deprecated params e165d8e fix e0fa283 example slurm jobscript fix 47627a4 Merge branch 'LFPy_dev' of github.com:espenhgn/hybridLFPy into LFPy_dev 862c3c8 fixes when NEURON is compiled with MPI aebe951 python 3 fix c38bdf3 removed mention of arXiv 42d382d updated README with correct citation ab0d6b9 integer division a440c0a close figs after file write e483abc closing figures after writing files de7e5b6 k_yXL must be integer c827d77 fixed issue in gdf module w. Python 3 1207c25 minor fix w. python 3 5c9ef00 converted codes to Python 3.x 8759fb3 adapted cellParams dict to LFPy v.2 40a21f5 fixed g_pas values 4bc1ee2 use Agg as matplotlib backend if there is no DISPLAY env var 0a56d10 fullscale sim a86aedf renamed test function, fixed tests 693fb75 adapt hybrid scheme to future LFPy v2 f8bd64b timeres_python and timeres_NEURON renamed to dt in LFPy:dev fdfafbd updated docstring and examples for new kwarg X for class CachedNetwork 01be39b introducing kwarg X for population names in CachedNetwork classes 8407b0c dummy network spikes using poisson generators c966373 nrnivmodl 3c5a534 removed .DS_Store files 8cc195c writing all figure files to root folder of example 20f93be nothing 0c5f2e2 number of simulation output path fixes c223fdc readme updates 3ecdab0 script to write and submit Slurm jobscripts to cluster que added a425255 added a COMM.Barrier() before trying to merge gdf files, some cleanup 314dfac dont need this file to be executable 80ae14b added files producing figures in Hagen et al, accepted in Cerebral Cortex 813879a can now set spike sequences explicitly for each TC neuron