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ReproNim / sfn2018-training

Materials for SfN 2018 training event
http://repronim.org/sfn2018-training
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VM for SFN18 #3

Open djarecka opened 5 years ago

djarecka commented 5 years ago

Hi @mjtravers cc: @satra , @yarikoptic , @jbpoline

I was told that we are not creating a new VM, and we will be using the OHBM one. Could you please confirm that this link contains the latest version: https://training.repronim.org/reprotraining.ova

Want to be sure that we're all testing the same one

mjtravers commented 5 years ago

Yes, that's the download link for the VM we used at OHBM.

Let me know if any issues come up and we can tweak it.

On Sat, Oct 20, 2018 at 5:06 PM Dorota Jarecka notifications@github.com wrote:

Hi @mjtravers https://github.com/mjtravers cc: @satra https://github.com/satra , @yarikoptic https://github.com/yarikoptic , @jbpoline https://github.com/jbpoline

I was told that we are not creating a new VM, and we will be using the OHBM one. Could you please confirm that this link contains the latest version: https://training.repronim.org/reprotraining.ova

Want to be sure that we're all testing the same one

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yarikoptic commented 5 years ago

Also see #4 where I added it under annex -- needs feedback

djarecka commented 5 years ago

ok, let me know when the new vm is under the link

yarikoptic commented 5 years ago

what do you mean @djarecka ? the VM to be tested and probably to be used is the old OHBM one AFAIK. So no need to wait. that #4 is just to reference it via git-annex

djarecka commented 5 years ago

@yarikoptic -oh, ok, sorry didn't read the PR carefully, thought that you added something to the vm.

yarikoptic commented 5 years ago

@mjtravers I think

sudo apt-get update; sudo apt-get install -y git-annex-standalone; pip install --upgrade datalad[full] datalad-neuroimaging datalad-container

should be sufficient! Thanks!

mjtravers commented 5 years ago

@yarikoptic I made the datalad upgrade to the python packages in the conda environment: section2 The other sections don't appear to need the upgrade. Here's the new ova: https://training.repronim.org/reprotraining.ova When you give it a green light, I will alert JB the VM is ready.

yarikoptic commented 5 years ago

thanks @mjtravers , downloading to test

yarikoptic commented 5 years ago

FWIW, reran http://onerussian.com/tmp/rerunall.sh script within, which should be what we have in those reproin/datalad sections -- seems to work correctly all the way. So we might be all set to go on that end, unless something else to be done for other sections?

mjtravers commented 5 years ago

@jbpoline No one has chimed in with additional updates to the VM so it is posted and ready for downloading. The instructions are in the repo README: https://github.com/ReproNim/sfn2018-training

Here's the download URL: https://training.repronim.org/reprotraining.ova

jbpoline commented 5 years ago

@mjtravers @djarecka @yarikoptic Great - sorry I missed this and sent an email - will advertised the ova asap :)