From 825542591b174cf526f99b7b488df2421dd0cc6c Mon Sep 17 00:00:00 2001 From: Michelle Wang Date: Thu, 5 Nov 2026 10:20:58 -0500 Subject: [PATCH 1/3] add paragraph explaining why we are using already processed data --- docs/source/initial_setup.md | 3 +++ 1 file changed, 3 insertions(+) diff --git a/docs/source/initial_setup.md b/docs/source/initial_setup.md index 97159dd..f101668 100644 --- a/docs/source/initial_setup.md +++ b/docs/source/initial_setup.md @@ -135,6 +135,9 @@ FBM_SECURITY_ALLOW_FEDERATED_ANALYTICS=True ## Data download +In the interest of time, here we provide open-access imaging data that has already been preprocessed with FreeSurfer. +In the future, we may propose a follow-up experiment where a subset of participating nodes process either OpenNeuro raw BIDS data or their own data with FreeSurfer using Nipoppy. + Download the OpenNeuro dataset assigned to your site, replacing `` with its ID. Your dataset ID is the second part of the `FBM_NODE_NAME` variable you just set in your `.env` file, beginning with `ds` (e.g. `ds123456` in the example `.env` file above). From b31a7b9e97469ed4a0d832a28e343f988057aabd Mon Sep 17 00:00:00 2001 From: Michelle Wang Date: Thu, 5 Nov 2026 10:22:27 -0500 Subject: [PATCH 2/3] minor wording change --- docs/source/initial_setup.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/docs/source/initial_setup.md b/docs/source/initial_setup.md index f101668..00ef84f 100644 --- a/docs/source/initial_setup.md +++ b/docs/source/initial_setup.md @@ -135,8 +135,8 @@ FBM_SECURITY_ALLOW_FEDERATED_ANALYTICS=True ## Data download -In the interest of time, here we provide open-access imaging data that has already been preprocessed with FreeSurfer. -In the future, we may propose a follow-up experiment where a subset of participating nodes process either OpenNeuro raw BIDS data or their own data with FreeSurfer using Nipoppy. +In the interest of time, we will use open-access imaging data that has already been preprocessed with FreeSurfer. +In the future, we may propose a follow-up experiment where a subset of interested participating nodes process either OpenNeuro raw BIDS data or their own data with FreeSurfer using Nipoppy. Download the OpenNeuro dataset assigned to your site, replacing `` with its ID. Your dataset ID is the second part of the `FBM_NODE_NAME` variable you just set in your `.env` file, beginning with `ds` (e.g. `ds123456` in the example `.env` file above). From 880415878b7b0e8c61dd63104603929266c336c2 Mon Sep 17 00:00:00 2001 From: Michelle Wang Date: Thu, 5 Nov 2026 10:24:57 -0500 Subject: [PATCH 3/3] wrap in an admonition --- docs/source/initial_setup.md | 2 ++ 1 file changed, 2 insertions(+) diff --git a/docs/source/initial_setup.md b/docs/source/initial_setup.md index 00ef84f..781be9b 100644 --- a/docs/source/initial_setup.md +++ b/docs/source/initial_setup.md @@ -135,8 +135,10 @@ FBM_SECURITY_ALLOW_FEDERATED_ANALYTICS=True ## Data download +```{note} In the interest of time, we will use open-access imaging data that has already been preprocessed with FreeSurfer. In the future, we may propose a follow-up experiment where a subset of interested participating nodes process either OpenNeuro raw BIDS data or their own data with FreeSurfer using Nipoppy. +``` Download the OpenNeuro dataset assigned to your site, replacing `` with its ID. Your dataset ID is the second part of the `FBM_NODE_NAME` variable you just set in your `.env` file, beginning with `ds` (e.g. `ds123456` in the example `.env` file above).