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dockerfiles's Introduction

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NeuroDebian is a popular turnkey platform for Neuroscience, where software is integrated, tested, and delivered conveniently and reliably so you could concentrate on your research and not on "system maintenance". It provides a large collection of popular neuroscience research software for the Debian operating system as well as Ubuntu and other derivatives. Please visit our main website to discover more.

Travis tests status Docker https://www.singularity-hub.org/static/img/hosted-singularity--hub-%23e32929.svg

Related projects from the NeuroDebian authors

  • Open Brain Consent - samples and an ultimate wording for experiment participant consent forms to make open data sharing possible
  • DataLad - a data distribution and management platform, which addresses shortcomings of solutions of software/code-oriented solutions (such as NeuroDebian and pure git), when applied to data
  • ReproIn - a turnkey solution for collecting MRI data directly as BIDS DataLad datasets
  • DueCredit - Automated collection and reporting of citations for used software/methods/datasets
  • Study Forrest - a diverse and ever-expanding collection of data and studies on our favorite shrimping, cross-country running, international ping-pong champion: Forrest Gump
  • PyMVPA - a machine learning framework for the analysis of (not only) neuroimaging data
  • Discover more about these and other projects from Center for Open Neuroscience and Psychoinformatics.

dockerfiles's People

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dockerfiles's Issues

Build get stuck on survey needing user input

When adding `FROM neurodebian' to a dockerfile, the image get stuck at:

[...]
Participate in the package usage survey? [yes/no]

Is there any tip or extra config I should use to skip / move the build forward?

Add Support for ARM64V8 architecture

Hi,

The NeuroDebian docker package is building and running fine at my end for ARM64v8 architecture.

Branch used to build is:

stretch

Please suggest, what needs to be done to raise the request to add support for ARM64v8 arch at official docker library too.

Regards,

provide -nonfree flavor

@teanon what do you think?

quite frequently I need to work in a container which also points to contrib/non-free components since some quite popular packages are non-free... it is kinda annoying to always require installing vim or running some sed command to enable contrib/non-free. So I wondered if we could streamline it somehow. I see possibly

  1. proiding neurodebian:release-nonfree (e.g. neurodebian:sid-nonfree) flavors as well which would be identical to free, just with apt source adjusted accordingly. IMHO it is the preferable way
  2. provide a copy of apt .sources file with those nonfree suits enabled but the whole file .disabled, so if needed those could simply be mv/cp'ed over... but that is suboptimal since you need to remember/know all apt sources files to copy/modify

so, do you think going 1. way would be ok? any specific setup I could aim for, so e.g. -nonfree images could be created on top of neurodebian default (main only) ones?

thanks in advance for the feedback

python3.8 installation in neurodebian:buster

Could someone please help with installing python3.8 in neurodebian:buster?

The following fails (it works for python3.7; I need 3.8 as a requirement of installing NESTML):

FROM neurodebian:buster
MAINTAINER [email protected]

ENV DEBIAN_FRONTEND noninteractive
ENV LANG=C.UTF-8

RUN apt-get update; apt-get install -y automake libtool build-essential git vim octave
wget python3.8 libpython3.8 libpython3-dev libncurses5-dev libreadline-dev libgsl0-dev cython3
python3.8-dev python3-numpy python3-scipy python3-matplotlib python3-pip python3-nose
ipython3 python3-venv python-virtualenv python3-pyqt5 python-dev libgsl-dev libncurses-dev
subversion cmake zip unzip make;
apt-get clean

with error:

Reading state information...
E: Unable to locate package python3.8
E: Couldn't find any package by glob 'python3.8'
E: Couldn't find any package by regex 'python3.8'
E: Unable to locate package libpython3.8
E: Couldn't find any package by glob 'libpython3.8'
E: Couldn't find any package by regex 'libpython3.8'
E: Unable to locate package python3.8-dev
E: Couldn't find any package by glob 'python3.8-dev'
E: Couldn't find any package by regex 'python3.8-dev'

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