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Add freesurfer 7.3.0 and 7.3.1 #459

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merged 1 commit into from
Jul 29, 2022
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jennydaman
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@yarikoptic
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just to make sure -- @jennydaman did you try building with both of those versions and had some basic testing of containers done? (since AFAIK there is no CI for such things here)

@jennydaman
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Ehe, perhaps the branch name patch-1 revealed that I've been a little lazy here...

It's building on my local machine rn and I'll follow up this afternoon.

@jennydaman
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Here's what I did to try the build:

git clone --branch patch-1 localhost/jennydaman/neurodocker:latest
cd neurodocker
docker build -t localhost/jennydaman/neurodocker .
mkdir freesurfer_example
cd freesurfer_example
docker run --rm -it localhost/jennydaman/neurodocker:latest \
	generate docker \
	    --pkg-manager apt \
	    --base-image debian:buster-slim \
	    --freesurfer version=7.3.1 \
	> Dockerfile
docker build -t localhost/jennydaman/neurodocker-freesurfer:7.3.1 .

I confirmed basic working state:

$ docker run --rm localhost/jennydaman/neurodocker-freesurfer:7.3.1 which recon-all
/opt/freesurfer-7.3.1/bin/recon-all
$ docker run --rm localhost/jennydaman/neurodocker-freesurfer:7.3.1 recon-all -version
freesurfer-linux-centos7_x86_64-7.3.1-20220723-115e466

@jennydaman
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@yarikoptic this is unexpected.

On my fork I enabled Actions and created a dummy PR, the same unit test fails on master. jennydaman#1

@yarikoptic yarikoptic mentioned this pull request Jul 29, 2022
@yarikoptic
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"cool", filed dedicated #460

Let's proceed! Thank you!

@yarikoptic yarikoptic merged commit ce1c0cb into ReproNim:master Jul 29, 2022
@kaczmarj
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thanks @yarikoptic and @jennydaman

we will look into the bug causing tests to fail. thanks for identifying this.

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3 participants