From 6deac9fe119bc9f906aee2d32676ce2e0f1cc0e9 Mon Sep 17 00:00:00 2001 From: Austin Macdonald Date: Wed, 15 Jan 2025 15:59:30 -0600 Subject: [PATCH] Remove --no-datalad-get from datalad config Fixes: https://github.com/ReproNim/repronim.org/issues/104 --- content/resources/tutorials/repronim-containers.md | 9 +++++++++ 1 file changed, 9 insertions(+) diff --git a/content/resources/tutorials/repronim-containers.md b/content/resources/tutorials/repronim-containers.md index 0be23ac..220250e 100644 --- a/content/resources/tutorials/repronim-containers.md +++ b/content/resources/tutorials/repronim-containers.md @@ -136,6 +136,15 @@ specified in the `.gitmodules`. By freezing into the top-level dataset instead, authors do not need to host a modified version of `///reporonim/containers`. +#### Fixup datalad config + +The version of mriqc we are using does not have an option `--no-datalad-get` which is hardcoded +into mriqc config, so we should remove it. + +```bash +datalad run -m "Remove ad-hoc option for mriqc for older frozen version" sed -i -e 's, --no-datalad-get,,g' .datalad/config +``` + ### Step 5: Run the containers When we run the bids-mriqc container, it will need a working directory