diff --git a/.all-contributorsrc b/.all-contributorsrc
index e96f24bb..3a9bac05 100644
--- a/.all-contributorsrc
+++ b/.all-contributorsrc
@@ -7,7 +7,7 @@
"commit": false,
"contributorsPerLine": 8,
"projectName": "eCobidas",
- "projectOwner": "Remi-Gau",
+ "projectOwner": "ohbm",
"repoType": "github",
"repoHost": "https://github.com",
"skipCi": true,
diff --git a/.github/workflows/check_md_links.yml b/.github/workflows/check_md_links.yml
index 0d300cba..8e761829 100644
--- a/.github/workflows/check_md_links.yml
+++ b/.github/workflows/check_md_links.yml
@@ -18,4 +18,10 @@ jobs:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
- - uses: gaurav-nelson/github-action-markdown-link-check@v1
+ - uses: tcort/github-action-markdown-link-check@v1
+ with:
+ use-quiet-mode: yes
+ # use-verbose-mode: no
+ config-file: mlc_config.json
+ folder-path: docs
+ file-path: ./README.md
diff --git a/.github/workflows/update_spreadsheets.yml b/.github/workflows/update_spreadsheets.yml
index 5a3a8c76..6029acf9 100644
--- a/.github/workflows/update_spreadsheets.yml
+++ b/.github/workflows/update_spreadsheets.yml
@@ -19,7 +19,7 @@ concurrency:
jobs:
update_spreadsheet:
runs-on: ubuntu-latest
- if: github.repository_owner == 'Remi-Gau'
+ if: github.repository_owner == 'ohbm'
steps:
- name: Checkout repository
uses: actions/checkout@v4
diff --git a/.readthedocs.yaml b/.readthedocs.yaml
index 27ffd3cf..c0e94ce8 100644
--- a/.readthedocs.yaml
+++ b/.readthedocs.yaml
@@ -2,7 +2,7 @@
version: 2
build:
- os: ubuntu-22.04
+ os: ubuntu-24.04
tools:
python: '3.11'
diff --git a/CITATION.cff b/CITATION.cff
index c6c4fe65..9525a976 100644
--- a/CITATION.cff
+++ b/CITATION.cff
@@ -13,7 +13,7 @@ version: v1.0.0-dev
license: GPL-3.0
-repository-code: https://github.com/Remi-Gau/eCobidas.git
+repository-code: https://github.com/ohbm/eCobidas.git
message: Please cite preferentially using the open science framework DOI.
diff --git a/README.md b/README.md
index a56e7d94..4878c141 100644
--- a/README.md
+++ b/README.md
@@ -2,7 +2,7 @@
[](#contributors-)
-
+
# COBIDAS guidelines checklist
diff --git a/docs/contact.md b/docs/contact.md
index d00a6afa..86c6c92c 100644
--- a/docs/contact.md
+++ b/docs/contact.md
@@ -39,6 +39,6 @@ hide:
Otherwise you can open a new issue on the repository itself if there is
something you would like to discuss directly here.
- [Open an issue on GitHub](https://github.com/Remi-Gau/eCobidas/issues/new){ .md-button .md-button--primary }
+ [Open an issue on GitHub](https://github.com/ohbm/eCobidas/issues/new){ .md-button .md-button--primary }
diff --git a/docs/contributing/contributing.md b/docs/contributing/contributing.md
index 5952b453..76e080d6 100644
--- a/docs/contributing/contributing.md
+++ b/docs/contributing/contributing.md
@@ -5,11 +5,11 @@ There are many ways in which you can contribute to this project.
We have a list of [milestones](../goals/goals.md) for the different features we would like to include in this project.
Those milestones have
-[several opened issues](https://github.com/Remi-Gau/eCobidas/issues) related to them:
+[several opened issues](https://github.com/ohbm/eCobidas/issues) related to them:
have a look through those issues to see if there is any of them where you think you can help.
We are also track the progress to our different goals
-using some of the integrated [kanban boards](https://github.com/Remi-Gau/eCobidas/projects) that github offers.
+using some of the integrated [kanban boards](https://github.com/ohbm/eCobidas/projects) that github offers.
## What to contribute
@@ -35,7 +35,7 @@ If you are unsure where to start, we list some of the possibilities in the secti
corresponding to a single item or a set of items of the checklist
to automate methods writing once the checklist is completed.
- [:octicons-arrow-right-24: Boilerplate related issues](https://github.com/Remi-Gau/eCobidas/issues?q=is%3Aissue+is%3Aopen+label%3Aboilerplate)
+ [:octicons-arrow-right-24: Boilerplate related issues](https://github.com/ohbm/eCobidas/issues?q=is%3Aissue+is%3Aopen+label%3Aboilerplate)
- :fontawesome-solid-arrow-pointer:{ .lg .middle } **User interface**
@@ -45,7 +45,7 @@ If you are unsure where to start, we list some of the possibilities in the secti
and uses the [Vue framework](https://vuejs.org/) and this also needs a lot of tweaking,
so if Javascript is cup of tea: [get in touch!](../contact.md)
- [:octicons-arrow-right-24: UI related issues](https://github.com/Remi-Gau/eCobidas/issues?q=is%3Aissue+is%3Aopen+label%3Auser-interface)
+ [:octicons-arrow-right-24: UI related issues](https://github.com/ohbm/eCobidas/issues?q=is%3Aissue+is%3Aopen+label%3Auser-interface)
- :material-magnify-expand:{ .lg .middle } **Documentation**
@@ -55,6 +55,6 @@ If you are unsure where to start, we list some of the possibilities in the secti
then it's most likely that we did not do a good enough job at explaining and describing it.
[Get in touch](../contact.md) and we can work together to improve our documentation.
- [:octicons-arrow-right-24: Documentation related issues](https://github.com/Remi-Gau/eCobidas/issues?q=is%3Aissue+is%3Aopen+label%3Adocumentation)
+ [:octicons-arrow-right-24: Documentation related issues](https://github.com/ohbm/eCobidas/issues?q=is%3Aissue+is%3Aopen+label%3Adocumentation)
diff --git a/docs/contributing/contributors.md b/docs/contributing/contributors.md
index 1f21f022..8388ad8f 100644
--- a/docs/contributing/contributors.md
+++ b/docs/contributing/contributors.md
@@ -1,5 +1,5 @@
-[](#contributors-list)
+[](#contributors-)
# Contributors ✨
@@ -21,37 +21,39 @@ Thanks goes to these wonderful people
-
+
diff --git a/docs/contributing/spreadsheets.md b/docs/contributing/spreadsheets.md
index caf69388..e99ae170 100644
--- a/docs/contributing/spreadsheets.md
+++ b/docs/contributing/spreadsheets.md
@@ -9,7 +9,7 @@
The spreadsheets that allow us to generate the different checklists are hosted on this
[google drive folder](https://drive.google.com/drive/folders/1wg5k-6pSB3mQm_a30abX6qb-lzTn_S-Y?usp=sharing)
- and we back them up as TSVs in the [main repo of the project](https://github.com/Remi-Gau/eCobidas).
+ and we back them up as TSVs in the [main repo of the project](https://github.com/ohbm/eCobidas).
[:octicons-arrow-right-24: Back up the google sheets](./setup.md#update-the-tsvs)
@@ -96,7 +96,7 @@ to see only the items corresponding to one or more main sections
## Spreadsheet content
The description of the columns common to all spreadsheet is described in the
-[data dictionary](https://github.com/Remi-Gau/eCobidas/tree/main/ecobidas/inputs/data-dictionary.json).
+[data dictionary](https://github.com/ohbm/eCobidas/tree/main/ecobidas/inputs/data-dictionary.json).
Each column is described by an element in the JSON data dictionarry.
diff --git a/ecobidas/inputs/spreadsheet_google_id.yml b/ecobidas/inputs/spreadsheet_google_id.yml
index b1f37776..cd74733a 100644
--- a/ecobidas/inputs/spreadsheet_google_id.yml
+++ b/ecobidas/inputs/spreadsheet_google_id.yml
@@ -18,9 +18,9 @@ eyetracking:
basename: eyetracking
google_id: 1aQZINzS24oYDgu6PZ8djqZQZ2s2eNs2xP6kyzHokU8o
citation: https://doi.org/10.3758/s13428-023-02187-1
- app_link: https://remi-gau.github.io/cobidas-eyetracker/#/
+ app_link: https://ohbm.github.io/cobidas-eyetracker/#/
landing_page: ../README_eyetracker-en.html
- repo: https://github.com/Remi-Gau/cobidas-eyetracker
+ repo: https://github.com/ohbm/cobidas-eyetracker
neurovault:
dir: neurovault
@@ -28,7 +28,7 @@ neurovault:
google_id: 1arizMF2GnaiXz9txY5tzTU7uoA0_ENE17W5wDeUPpu0
citation: https://doi.org/10.3389/fninf.2015.00008
app_link: https://ohbm.github.io/eCOBIDAS/#/
- repo: https://github.com/ohbm/eCOBIDAS
+ repo: https://github.com/ohbm/cobidas-mri
landing_page: ../README_eCOBIDAS-en.html
pet:
@@ -36,18 +36,18 @@ pet:
basename: pet
google_id: 1HS-1KOP8nE7C3MHiyRmQ6hd823cBZnCRVq0UryXvDc8
citation: https://doi.org/10.1177/0271678X20905433
- app_link: https://remi-gau.github.io/cobidas-PET/#/
+ app_link: https://ohbm.github.io/cobidas-PET/#/
landing_page: ../README_PET-en.html
- repo: https://github.com/Remi-Gau/cobidas-PET
+ repo: https://github.com/ohbm/cobidas-PET
reexecution:
dir: reexecution
basename: reexecution
google_id: 1M9H7Bkti4OEVrYETajLbpbwY0T-QqSkpRUiwTz6-5Vc
citation: https://doi.org/10.12688/f1000research.25306.2
- app_link: https://remi-gau.github.io/cobidas_reexecute/#/
+ app_link: https://ohbm.github.io/cobidas_reexecute/#/
landing_page: ../README_reexecute-en.html
- repo: https://github.com/Remi-Gau/cobidas_reexecute
+ repo: https://github.com/ohbm/cobidas_reexecute
# --------------------------- ACTIVITIES ---------------------------
@@ -287,9 +287,9 @@ resp-ver-macos:
test:
dir: tests
basename: test
- link: https://github.com/Remi-Gau/eCobidas/blob/main/tests/inputs/test.tsv
+ link: https://github.com/ohbm/eCobidas/blob/main/tests/inputs/test.tsv
citation: http://google.com
- repo: https://github.com/Remi-Gau/eCobidas
+ repo: https://github.com/ohbm/eCobidas
# --------------------------- DEPRECATED ---------------------------
diff --git a/mkdocs.yml b/mkdocs.yml
index b1357869..5cbb2a81 100644
--- a/mkdocs.yml
+++ b/mkdocs.yml
@@ -1,8 +1,8 @@
---
# Project information
site_name: eCOBIDAS
-repo_name: Remi-Gau/eCobidas
-repo_url: https://github.com/Remi-Gau/eCobidas
+repo_name: ohbm/eCobidas
+repo_url: https://github.com/ohbm/eCobidas
# docs_dir: alternative_path # docs/ is the default folder
# This will use Material them
@@ -56,7 +56,7 @@ plugins:
- macros:
module_name: macros/main
-edit_uri: https://github.com/Remi-Gau/eCobidas/edit/main/docs/
+edit_uri: https://github.com/ohbm/eCobidas/edit/main/docs/
exclude_docs: |
communication/README.md
@@ -110,7 +110,7 @@ extra:
generator: false
social:
- icon: fontawesome/brands/github
- link: https://github.com/Remi-Gau/eCobidas
+ link: https://github.com/ohbm/eCobidas
# - icon: simple-mattermost
# link: https://mattermost.brainhack.org/brainhack/channels/cobidas_checklist
- icon: fontawesome/brands/google
diff --git a/tests/data/README.md b/tests/data/README.md
index c184a6a5..19eac641 100644
--- a/tests/data/README.md
+++ b/tests/data/README.md
@@ -5,4 +5,4 @@
Link to view:
-https://www.repronim.org/reproschema-ui/#/?url=https://raw.githubusercontent.com/Remi-Gau/eCobidas/dev/python/tests/data/protocols/test_schema.jsonld
+https://www.repronim.org/reproschema-ui/#/?url=https://raw.githubusercontent.com/ohbm/eCobidas/dev/python/tests/data/protocols/test_schema.jsonld
diff --git a/tests/data/activities/select_activity/select_activity_schema.jsonld b/tests/data/activities/select_activity/select_activity_schema.jsonld
index c858b17a..c40477f7 100644
--- a/tests/data/activities/select_activity/select_activity_schema.jsonld
+++ b/tests/data/activities/select_activity/select_activity_schema.jsonld
@@ -9,7 +9,7 @@
},
"description": "select activity",
"preamble": {
- "en": " Source | GitHub repository | Reference
A list of selection item
"
+ "en": " Source | GitHub repository | Reference
A list of selection item
"
},
"ui": {
"shuffle": false,
diff --git a/tox.ini b/tox.ini
index c097ab60..61ffc84e 100644
--- a/tox.ini
+++ b/tox.ini
@@ -44,7 +44,7 @@ extras = test
deps =
{[reproschema]deps}
commands =
- pytest --cov=ecobidas --cov-report=xml --cov-report=html {posargs:}
+ pytest --cov=ecobidas --cov-report=xml --cov-report=html -vv {posargs:}
[testenv:doc]
description = serve doc
