Merge pull request #2 from galaxyproject/main

rebase files from gtn up website

Author: PaulineSGN

Diff for: .github/workflows/ci.yml

@@ -8,17 +8,6 @@ concurrency:
 on:
   pull_request:
     types: [opened, reopened, synchronize, ready_for_review]
-    paths:
-      - 'Gemfile.lock'
-      - '**/*.md'
-      - '**/*.html'
-      - '*.yml'
-      - '*.yaml'
-      - 'metadata/*'
-      - 'topics/*/images/*'
-      - '_plugins/*'
-      - '_plugins_dev/*'
-      - '**/*.bib'
 
 jobs:
   build-site:

Diff for: .github/workflows/google-form-recordings.yml

@@ -57,18 +57,20 @@ jobs:
             New recording submitted!
 
             **Submission Process checklist**
-            - [x] **Instructor** Record video
-            - [x] **Instructor** Submit video via form
-            - [x] **GTN** Pull request made by bot
-            - [ ] **GTN** Check if adjustments to PR are necessary
-              - [ ] Check [Submissions Form](https://docs.google.com/spreadsheets/d/1iXjLlMEH5QMAMyUMHi1c_Lb7OiJhL_9hgJrtAsBoZ-Y/edit?usp=sharing)
-              - [ ] New contributors need to be added?
-            - [ ] **GTN** Upload video to [GalaxyProject YouTube](https://www.youtube.com/c/galaxyproject)
-              - [ ] **GTN** Add youtube video id to PR after upload
-            - [ ] **GTN** Put Autogenerated captions in Google Doc ([folder](https://drive.google.com/drive/folders/1liyqDQDbxMNXvpQIaqFmoE2fB2aJIH9N?usp=drive_link))
-            - [ ] **Instructor** Fix autogenerated captions, comment here when done
-            - [ ] **GTN** Upload fixed captions to YouTube
-            - [ ] **GTN** Add the people who did the captioning to this PR
-            - [ ] **GTN** Merge PR!
+            - [x] **Instructor:** Record video
+            - [x] **Instructor:** Submit video via form
+            - [x] **GTN:** Pull request made by bot
+            - [ ] **GTN:** Check [Submissions Spreadsheet](https://docs.google.com/spreadsheets/d/1iXjLlMEH5QMAMyUMHi1c_Lb7OiJhL_9hgJrtAsBoZ-Y/edit?usp=sharing)
+              - [ ] Mark the 'PR made?' column as 'yes' in the spreadsheet
+              - [ ] Ping speakers on this PR
+              - [ ] Add any new contributors to `CONTRIBUTORS.yaml` file
+            - [ ] **GTN:** Upload video to [GalaxyProject YouTube](https://www.youtube.com/c/galaxyproject)
+              - [ ] **GTN:** Add YouTube video id to PR after upload
+            - [ ] **GTN:** Put Autogenerated captions in Google Doc ([folder](https://drive.google.com/drive/folders/1liyqDQDbxMNXvpQIaqFmoE2fB2aJIH9N?usp=drive_link))
+              - [ ] **GTN:** Check that permissions on the Doc are set to "Everybody with the link can edit"
+            - [ ] **Instructor:** Fix autogenerated captions, comment here when done
+            - [ ] **GTN:** Upload fixed captions to YouTube
+            - [ ] **GTN:** Add the people who did the captioning to this PR
+            - [ ] **GTN:** Merge PR!
 
 

Diff for: .github/workflows/monthly-release-backfill.yml

@@ -17,6 +17,7 @@ jobs:
         with:
           ref: "${{ github.event.inputs.selected_tag }}"
           fetch-depth: 0
+          fetch-tags: true
 
       # BEGIN Dependencies
       - uses: actions/setup-python@v5

Diff for: .github/workflows/monthly-release.yml

@@ -24,6 +24,7 @@ jobs:
         with:
           # Based on logic in deploy.yml
           fetch-depth: 1200
+          fetch-tags: true
 
       # BEGIN Dependencies
       - uses: actions/setup-python@v5
@@ -93,5 +94,7 @@ jobs:
 
       - name: Create Release
         id: create_release
+        env:
+          GH_TOKEN: ${{ secrets.GITHUB_TOKEN }}
         run: |
           gh release create ${{ env.release_tag }} --title "Release ${{ env.release_title }}" --notes "Monthly release of the GTN materials is now [available on the archive](https://training.galaxyproject.org/archive/${{ env.release_tag }}/)." --target main --latest

Diff for: CONTRIBUTORS.yaml

@@ -80,6 +80,20 @@ abdulrahmanazab:
     name: Abdulrahman Azab
     joined: 2019-01
 
+abueg:
+    name: Linelle Abueg
+    twitter: llabueg
+    orcid: 0000-0002-6879-3954
+    joined: 2022-01
+
+ahmedhamidawan:
+    name: Ahmed Hamid Awan
+    email: [email protected]
+    matrix: 'ahmedhamidawan:matrix.org'
+    orcid: 0009-0003-2600-6152
+    linkedin: ahmed-awan-70a20919a
+    joined: 2024-08
+
 AfiDede:
     name: Kweyakie Afi Blebo
     twitter: _Afidede
@@ -602,6 +616,12 @@ desmond-jasper:
     name: Desmond Jasper
     joined: 2020-04
 
+dianichj:
+        name: Diana Chiang Jurado
+        email: [email protected]
+        orcid: 0000-0002-5857-1477
+        joined: 2024-08
+
 dirowa:
     name: Donny Vrins
     joined: 2021-10
@@ -671,11 +691,23 @@ ElectronicBlueberry:
       - uni-freiburg
       - elixir-europe
 
+angiolini:
+    github: false
+    name: Emily Angiolini
+    joined: 2024-05
+    elixir_node: uk
+    orcid: 0000-0002-0814-8830
+    
 emmaleith:
     name: Emma Leith
     email: [email protected]
     joined: 2019-07
 
+emmaustin20:
+    name: Emmanuel Augustine
+    email: [email protected]
+    joined: 2024-09
+
 emichn:
     name: Elisa Michon
     joined: 2019-03
@@ -794,6 +826,13 @@ fubar2:
     joined: 2021-02
     elixir_node: au
 
+GabrielaLopez:
+    name: Gabriela Lopez-Gonzalez
+    twitter: GabyBelicosa
+    orcid: 0000-0002-0814-8830
+    joined: 2023-01
+    elixir_node: uk
+    
 gallardoalba:
     name: Cristóbal Gallardo
     joined: 2020-11
@@ -807,6 +846,10 @@ GaloGS:
     name: Galo A. Goig
     joined: 2022-03
 
+GarethPrice-Aus :
+    name: Gareth Price
+    joined: 2024-09
+
 garimavs:
     name: Garima Singh
     email: [email protected]
@@ -931,9 +974,21 @@ huitang-earth:
     orcid: 0000-0002-8745-3859
     joined: 2021-01
 
+hujambo-dunia:
+    name: Michelle Terese Savage
+    orcid: 0009-0006-2858-2593
+    linkedin: michelleteresesavage
+    joined: 2024-08
+    affiliations:
+      - johnshopkins
+
 igcbioinformatics:
     name: IGC Bioinformatics Unit
     joined: 2018-12
+    
+igormakunin:
+    name: Igor Makunin
+    joined: 2024-09
 
 ioanagry:
     name: Ioana Popescu
@@ -1246,10 +1301,6 @@ LeilyR:
     name: Leily Rabbani
     joined: 2018-09
 
-abueg:
-    name: Linelle Abueg
-    joined: 2022-01
-
 lilianarutaihwa:
     name: Liliana Rutaihwa
     joined: 2024-06
@@ -1297,6 +1348,10 @@ LonsBio:
 loraine-gueguen:
     name: Loraine Guéguen
     joined: 2017-09
+    
+lybCNU:
+    name: Yongbin Li
+    joined: 2024-08
 
 kilpert:
     name: Fabian Kilpert
@@ -1401,6 +1456,11 @@ marziacremona:
     email: [email protected]
     joined: 2018-02
 
+mateeullah905:
+    name: Matee Ullah
+    email: [email protected]
+    joined: 2024-09
+
 matthias313:
     name: Matthias Fahrner
     email: [email protected]
@@ -1478,6 +1538,10 @@ Melkeb:
 melpetera:
     name: Mélanie Petera
     joined: 2019-06
+    
+meltemktn:
+    name: Meltem Kutnu
+    joined: 2024-09
 
 mgramm1:
     name: Marie Gramm
@@ -1535,6 +1599,10 @@ mritchie:
     name: Matt Ritchie
     joined: 2018-09
 
+mschatz:
+    name: Michael Schatz
+    joined: 2024-09
+
 msozzoni:
     name: Marcella Sozzoni
     joined: 2022-03
@@ -1593,6 +1661,11 @@ nakucher:
     name: Natalie Kucher
     email: [email protected]
     joined: 2023-06
+    
+natalie-wa:
+    name: Natalie Whitaker-Allen
+    email: [email protected]
+    joined: 2024-08
 
 natefoo:
     name: Nate Coraor
@@ -1631,11 +1704,6 @@ NickSto:
     twitter: NickStoler
     joined: 2018-07
 
-nsjuty:
-    name: Nick Juty
-    orcid: 0000-0002-2036-8350
-    joined: 2024-04
-
 nomadscientist:
     name: Wendi Bacon
     email: [email protected]
@@ -1655,11 +1723,19 @@ npalopoli:
     joined: 2021-09
 
 npechl:
-    name: Nikolaos Pechlivanis
-    email: [email protected]
+    name: Nikos Pechlivanis
     twitter: npechl
-    joined: 2023-05
     orcid: 0000-0003-2502-612X
+    linkedin: npechl
+    joined: 2023-05
+    elixir_node: gr
+    affiliations:
+      - inab-certh
+
+nsjuty:
+    name: Nick Juty
+    orcid: 0000-0002-2036-8350
+    joined: 2024-04
 
 nsoranzo:
     name: Nicola Soranzo
@@ -1782,7 +1858,7 @@ paulzierep:
 
 pavanvidem:
     name: Pavankumar Videm
-    orcid: 0000-0002-5192-126X
+    orcid: 0000-0002-5192-126X  
     joined: 2017-09
     affiliations:
       - uni-freiburg
@@ -1929,10 +2005,30 @@ rwinand:
     affiliations:
       - sciensano
 
+RZ9082:
+    name: Rand Zoabi
+    joined: 2024-08
+    matrix: 'rand_z:matrix.org'
+    email: [email protected]
+    orcid: 0009-0000-2501-8053
+
 s3by01:
     name: Sébastien Fouilloux
     joined: 2024-05
 
+SaimMomin12:
+    name: Saim Momin
+    email: [email protected]
+    twitter: SaimMomin12
+    matrix: 'saimmomin:matrix.org'
+    orcid: 0009-0003-9935-828X
+    elixir_node: de
+    linkedin: saim-momin
+    joined: 2024-03
+    affiliations:
+      - uni-freiburg
+      - elixir-europe
+
 samanthaanjei:
     name: Samantha Anjei
     joined: 2022-04
@@ -2147,6 +2243,10 @@ tb143:
     name: Tim Beck
     joined: 2023-09
 
+tcollins2011:
+    name: Tyler Collins
+    joined: 2024-09
+
 tduigou:
     name: Thomas Duigou
     email: [email protected]
@@ -2246,6 +2346,10 @@ tsenapathi:
     name: Tharindu Senapathi
     joined: 2019-05
 
+trungN:
+    name: Nguyen Vo Minh Trung
+    joined: 2024-09    
+
 TKlingstrom:
     name: Tomas Klingström
     email: [email protected]
@@ -2396,3 +2500,10 @@ ThibaudGlinez:
     affiliations:
       - pndb
       - elixir-europe
+
+
+tbrown91:
+    name: Tom Brown
+    email: [email protected]
+    orcid: 0000-0001-8293-4816
+    joined: 2024-08

Diff for: FUNDERS.yaml

@@ -76,6 +76,13 @@ CINECA-Project:
     funder_name: Horizon 2020
     url: https://www.cineca-project.eu
 
+nfdi4plants:
+    name: DataPLANT
+    joined: 2024-07
+    url: https://www.nfdi4plants.de://www.nfdi4plants.de/
+    avatar: "/training-material/shared/images/logo-dataplant.svg"
+    funder: true
+
 deNBI:
     name: de.NBI
     funder: true
@@ -230,6 +237,23 @@ h2020-defend:
       This work has received funding from the DEFEND project (www.defend2020.eu) with funding from the European Union's Horizon 2020 research and innovation programme under grant agreement No 773701.
     url: https://www.defend2020.eu
 
+madland:
+    name: MAdLand
+    joined: 2024-07
+    url: https://madland.science
+    avatar: "/training-material/shared/images/logo-madland.jpg"
+    funder: true
+    github: false
+
+mwk:
+    name: Ministerium für Wissenschaft, Forschung und Kunst Baden-Württemberg
+    short_name: MWK
+    joined: 2024-08
+    url: https://mwk.baden-wuerttemberg.de/de/startseite
+    avatar: "/training-material/assets/images/MWK.png"
+    funder: true
+    github: false
+
 nhgri-anvil:
     name: National Human Genome Research Institute Genomic Data Science Analysis, Visualization, and Informatics Lab-Space
     short_name: "NHGRI ANVIL"