Merge pull request #14 from marcobarilari/marco_fixes-and-updates

Fix bugs from previous PR
cpp-lln-lab · Oct 22, 2023 · 7eb9461 · 7eb9461
2 parents e4e3196 + 5766f36
commit 7eb9461
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Showing 7 changed files with 6 additions and 6 deletions.
diff --git a/...uster_workshop_2023/bids_filter_file.json → ...uster_workshop_2023/bids_filter_file.json b/...uster_workshop_2023/bids_filter_file.json → ...uster_workshop_2023/bids_filter_file.json
diff --git a/...r_workshop_2023/canada_connect_cluster.md → ...r_workshop_2023/canada_connect_cluster.md b/...r_workshop_2023/canada_connect_cluster.md → ...r_workshop_2023/canada_connect_cluster.md
@@ -172,7 +172,7 @@ Have your freesurfer license ready.
 Here is an example script
 
 ```bash
-{% include "fmriprep_cluster_workshop_2023/canada_fmriprep_on_cluster.sh" %}
+{% include "archive/fmriprep_cluster_workshop_2023/canada_fmriprep_on_cluster.sh" %}
 ```
 
 Extra reference:

diff --git a/...rkshop_2023/canada_fmriprep_on_cluster.sh → ...rkshop_2023/canada_fmriprep_on_cluster.sh b/...rkshop_2023/canada_fmriprep_on_cluster.sh → ...rkshop_2023/canada_fmriprep_on_cluster.sh
diff --git a/...ster_workshop_2023/joint_meeting_notes.md → ...ster_workshop_2023/joint_meeting_notes.md b/...ster_workshop_2023/joint_meeting_notes.md → ...ster_workshop_2023/joint_meeting_notes.md
diff --git a/doc/archive/running_fmriprep.md b/doc/archive/running_fmriprep.md
@@ -96,7 +96,7 @@ See this part of the FAQ for more info:
 https://fmriprep.org/en/21.0.2/faq.html#how-do-I-select-only-certain-files-to-be-input-to-fMRIPrep
 
 ```json
-{% include "fmriprep_cluster_workshop_2023/bids_filter_file.json" %}
+{% include "archive/fmriprep_cluster_workshop_2023/bids_filter_file.json" %}
 ```
 
 Create a `singularity_run_fmriprep.sh` script in the code folder

diff --git a/doc/welcome.md → doc/index.md b/doc/welcome.md → doc/index.md
diff --git a/mkdocs.yml b/mkdocs.yml
@@ -3,7 +3,7 @@
 site_name: CPP lab HPC guide
 repo_name: cpp-lln-lab/CPP_HPC
 repo_url: https://github.com/cpp-lln-lab/CPP_HPC
-
+# docs_dir: alternative_path # docs/ is the default folder
 copyright: MIT
 
 # This will use Material them
@@ -18,7 +18,7 @@ docs_dir: doc
 
 # Pages
 nav:
-- Welcome: welcome.md
+- Welcome: index.md
 - HPC UCLouvain (CECI):
   - overview: overview.md
   - cluster code snippets: cluster_code_snippets.md
@@ -28,8 +28,8 @@ nav:
 - Contributing: contributing.md
 - Archive:
   - fmriprep cluster workshop (2023):
-    - meeting notes: fmriprep_cluster_workshop_2023/joint_meeting_notes.md
-    - Compute Canada: fmriprep_cluster_workshop_2023/canada_connect_cluster.md
+    - meeting notes: archive/fmriprep_cluster_workshop_2023/joint_meeting_notes.md
+    - Compute Canada: archive/fmriprep_cluster_workshop_2023/canada_connect_cluster.md
   - rookie experience (2019): archive/rookie_experience_2019.md
   - fmriprep notes: archive/running_fmriprep.md