Fixes #4730

galaxyproject · Feb 16, 2024 · 4590efa · 4590efa
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diff --git a/topics/assembly/tutorials/mrsa-illumina/data-library.yaml b/topics/assembly/tutorials/mrsa-illumina/data-library.yaml
@@ -14,18 +14,18 @@ items:
   items:
   - name: Genome Assembly of MRSA using Illumina MiSeq Data
     items:
-    - name: 'DOI: 10.5281/zenodo.4534098'
+    - name: 'DOI: 10.5281/zenodo.10669812'
       description: latest
       items:
       - url: https://zenodo.org/api/files/52e04e0d-851d-42ff-8dd9-932b38cb8ca8/DRR187559_1.fastqsanger.bz2
         src: url
         ext: fastqsanger.bz2
-        info: https://doi.org/10.5281/zenodo.4534098
+        info: https://doi.org/10.5281/zenodo.10669812
       - url: https://zenodo.org/api/files/52e04e0d-851d-42ff-8dd9-932b38cb8ca8/DRR187559_2.fastqsanger.bz2
         src: url
         ext: fastqsanger.bz2
-        info: https://doi.org/10.5281/zenodo.4534098
+        info: https://doi.org/10.5281/zenodo.10669812
       - url: https://zenodo.org/api/files/52e04e0d-851d-42ff-8dd9-932b38cb8ca8/DRR187567.fastq.bz2
         src: url
         ext: fastq.bz2
-        info: https://doi.org/10.5281/zenodo.4534098
+        info: https://doi.org/10.5281/zenodo.10669812
diff --git a/topics/assembly/tutorials/mrsa-illumina/tutorial.md b/topics/assembly/tutorials/mrsa-illumina/tutorial.md
@@ -2,7 +2,7 @@
 layout: tutorial_hands_on
 
 title: Genome Assembly of a bacterial genome (MRSA) sequenced using Illumina MiSeq Data
-zenodo_link: 'https://zenodo.org/record/4534098'
+zenodo_link: 'https://zenodo.org/record/10669812'
 questions:
 - How to check the quality of the MiSeq data?
 - How to perform an assembly of a bacterial genome with MiSeq data?
@@ -384,4 +384,4 @@ The total length and the GC content of the assembly are coherent with expectatio
 
 # Conclusion
 
-In this tutorial, we prepared short reads, assembled them, and inspect the produced assembly for its quality. The assembly, even if uncomplete, is reasonable good to be used in downstream analysis, like [AMR gene detection]({% link topics/genome-annotation/tutorials/amr-gene-detection/tutorial.md %})
+In this tutorial, we prepared short reads, assembled them, and inspect the produced assembly for its quality. The assembly, even if uncomplete, is reasonable good to be used in downstream analysis, like [AMR gene detection]({% link topics/genome-annotation/tutorials/amr-gene-detection/tutorial.md %})
diff --git a/topics/assembly/tutorials/mrsa-illumina/workflows/main_workflow-test.yml b/topics/assembly/tutorials/mrsa-illumina/workflows/main_workflow-test.yml
@@ -3,11 +3,11 @@
   job:
     DRR187559_1:
       class: File
-      location: https://zenodo.org/record/4534098/files/DRR187559_1.fastqsanger.bz2
+      location: https://zenodo.org/record/10669812/files/DRR187559_1.fastqsanger.bz2
       filetype: fastqsanger.bz2
     DRR187559_2:
       class: File
-      location: https://zenodo.org/record/4534098/files/DRR187559_2.fastqsanger.bz2
+      location: https://zenodo.org/record/10669812/files/DRR187559_2.fastqsanger.bz2
       filetype: fastqsanger.bz2
   outputs:
     fastp_json:

diff --git a/topics/assembly/tutorials/mrsa-nanopore/data-library.yaml b/topics/assembly/tutorials/mrsa-nanopore/data-library.yaml
@@ -14,18 +14,18 @@ items:
   items:
   - name: Genome Assembly of MRSA using Oxford Nanopore MinION Data
     items:
-    - name: 'DOI: 10.5281/zenodo.4534098'
+    - name: 'DOI: 10.5281/zenodo.10669812'
       description: latest
       items:
       - url: https://zenodo.org/api/files/52e04e0d-851d-42ff-8dd9-932b38cb8ca8/DRR187559_1.fastqsanger.bz2
         src: url
         ext: fastqsanger.bz2
-        info: https://doi.org/10.5281/zenodo.4534098
+        info: https://doi.org/10.5281/zenodo.10669812
       - url: https://zenodo.org/api/files/52e04e0d-851d-42ff-8dd9-932b38cb8ca8/DRR187559_2.fastqsanger.bz2
         src: url
         ext: fastqsanger.bz2
-        info: https://doi.org/10.5281/zenodo.4534098
+        info: https://doi.org/10.5281/zenodo.10669812
       - url: https://zenodo.org/api/files/52e04e0d-851d-42ff-8dd9-932b38cb8ca8/DRR187567.fastq.bz2
         src: url
         ext: fastq.bz2
-        info: https://doi.org/10.5281/zenodo.4534098
+        info: https://doi.org/10.5281/zenodo.10669812
diff --git a/topics/assembly/tutorials/mrsa-nanopore/tutorial.md b/topics/assembly/tutorials/mrsa-nanopore/tutorial.md
@@ -2,7 +2,7 @@
 layout: tutorial_hands_on
 
 title: Genome Assembly of MRSA using Oxford Nanopore MinION Data
-zenodo_link: 'https://zenodo.org/record/4534098'
+zenodo_link: 'https://zenodo.org/record/10669812'
 questions:
 - How to check the quality of the MinION data?
 - How to perform an assembly with MinION data?