diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
index b11c49a1958092..7ea5b8e005c73d 100644
--- a/.github/workflows/ci.yml
+++ b/.github/workflows/ci.yml
@@ -71,6 +71,10 @@ jobs:
--enforce-https=false \
./_site
+ - name: Ensure no unexpected encoded HTML in output
+ run: |
+ ! fgrep -R 'lt;blockquote' _site
+
- name: Run aXe accessibility testing on some representative URLs
run: |
node_modules/.bin/http-server _site/ &
diff --git a/_config.yml b/_config.yml
index 1ce899f47be815..9207052df383dc 100644
--- a/_config.yml
+++ b/_config.yml
@@ -244,16 +244,16 @@ plugins:
- jekyll-redirect-from
# An announcement to display on the home page
-announcement:
- class: success
- title: GTN Celebrates Pride Month
- text: |
- June is pride month in many countries around the world! The GTN is celebrating it by remembering the story of Alan L. Hart, a trans doctor who pioneered the use of x-ray photography in tuberculosis detection.
-
- [Read about Alan L. Hart's contribution to M. Tuberculosis](/training-material/news/2023/06/01/hart.html){: .btn.btn-primary}
- Activate the GTN Theme!
-
- Note: You can change your theme any time via the 'Extras' menu at the top!
+#announcement:
+# class: success
+# title: GTN Celebrates Pride Month
+# text: |
+# June is pride month in many countries around the world! The GTN is celebrating it by remembering the story of Alan L. Hart, a trans doctor who pioneered the use of x-ray photography in tuberculosis detection.
+#
+# [Read about Alan L. Hart's contribution to M. Tuberculosis](/training-material/news/2023/06/01/hart.html){: .btn.btn-primary}
+# Activate the GTN Theme!
+#
+# Note: You can change your theme any time via the 'Extras' menu at the top!
# A banner image that can be displayed separately for short wide banner images. Alt text is mandatory.
# banner_image:
diff --git a/topics/assembly/tutorials/largegenome/tutorial.md b/topics/assembly/tutorials/largegenome/tutorial.md
index 0685d89fbc5d14..c1ee211715e72e 100644
--- a/topics/assembly/tutorials/largegenome/tutorial.md
+++ b/topics/assembly/tutorials/largegenome/tutorial.md
@@ -147,7 +147,9 @@ We are also using a reference genome *Arabidopsis thaliana* for a later comparis
> {% snippet faqs/galaxy/datasets_import_from_data_library.md %}
>
> 3. Check that the datatypes for the three files of sequencing reads are `fastq.gz`, not `fastqsanger.gz` and change datatype if needed.
+>
> {% snippet faqs/galaxy/datasets_change_datatype.md datatype="datatypes" %}
+>
{: .hands_on}
* This tutorial uses these input files and gives some examples from the results.
diff --git a/topics/epigenetics/tutorials/atac-seq/tutorial.md b/topics/epigenetics/tutorials/atac-seq/tutorial.md
index 09974ed8fa2a34..8c3a63535cc377 100644
--- a/topics/epigenetics/tutorials/atac-seq/tutorial.md
+++ b/topics/epigenetics/tutorials/atac-seq/tutorial.md
@@ -438,8 +438,11 @@ Because of the PCR amplification, there might be read duplicates (different read
> - {% icon param-file %} *"Select lines from"*: Select the output of **MarkDuplicates** {% icon tool %}
> - *"that*: `Matching`
> - *"the pattern*: `(Library|LIBRARY)`
+>
> 2. Check that the datatype is tabular. If not, change it.
+>
> {% snippet faqs/galaxy/datasets_change_datatype.md datatype="tabular" %}
+>
> 3. {% tool [Transpose rows/columns in a tabular file](toolshed.g2.bx.psu.edu/repos/iuc/datamash_transpose/datamash_transpose/1.1.0) %}:
> - {% icon param-file %} *"Select lines from"*: Select the output of **Select** {% icon tool %}
>
diff --git a/topics/metabolomics/tutorials/gc_ms_with_xcms/tutorial.md b/topics/metabolomics/tutorials/gc_ms_with_xcms/tutorial.md
index 917ff51c0409e2..d74747ca40d919 100644
--- a/topics/metabolomics/tutorials/gc_ms_with_xcms/tutorial.md
+++ b/topics/metabolomics/tutorials/gc_ms_with_xcms/tutorial.md
@@ -326,46 +326,46 @@ The spectral data comes as an `.msp` file, which is a text file structured accor
> Data Exploration
>
-> Click *"View data"* {% icon galaxy-eye %} icon next to the dataset in the Galaxy history. The contents of the file would look like this:
->
-> {% snippet faqs/galaxy/datasets_icons.md %}
->
-> ```
-> NAME:C001
-> IONMODE:Negative
-> SPECTRUMTYPE:Centroid
-> RETENTIONTIME:383.27
-> Num Peaks:231
-> 217.1073 64041926
-> 243.0865 35597866
-> 257.1134 31831229
-> 224.061 27258239
-> 258.11 24996353
-> 241.0821 23957171
-> 315.1188 13756744
-> ...
->
-> NAME:C002
-> IONMODE:Negative
-> SPECTRUMTYPE:Centroid
-> RETENTIONTIME:281.62
-> Num Peaks:165
-> 307.1573 299174880
-> 147.0654 298860831
-> 149.0447 287809889
-> 218.1066 118274758
-> 189.076 112486871
-> 364.1787 75134143
-> 191.0916 52526567
-> 308.1579 52057158
-> ...
-> ```
->
-> > Negative ion mode
-> >
-> > You might wonder how can the ionisation mode (_IONMODE_) for GC-MS data be negative when using electron impact (EI+) ionization. This is, of course, incorrect. This is actually just a default behaviour of **RAMClustR**. We can optionally change this by providing **RAMClustR** an experiment definition file. This file can be created manually or using the {% tool [RAMClustR define experiment](toolshed.g2.bx.psu.edu/repos/recetox/ramclustr_define_experiment/ramclustr_define_experiment/1.0.2) %} tool. There we can specify annotations such as what instrument we used or ionisation mode (which was EI+ in our case), and this will be transfered to the `.msp` file. Finally, we can provide such a file as an input to **RAMClustR** in the _Extras_ inputs section.
-> >
-> {: .details}
+> Click *"View data"* {% icon galaxy-eye %} icon next to the dataset in the Galaxy history. The contents of the file would look like this:
+>
+> {% snippet faqs/galaxy/datasets_icons.md %}
+>
+> ```
+> NAME:C001
+> IONMODE:Negative
+> SPECTRUMTYPE:Centroid
+> RETENTIONTIME:383.27
+> Num Peaks:231
+> 217.1073 64041926
+> 243.0865 35597866
+> 257.1134 31831229
+> 224.061 27258239
+> 258.11 24996353
+> 241.0821 23957171
+> 315.1188 13756744
+> ...
+>
+> NAME:C002
+> IONMODE:Negative
+> SPECTRUMTYPE:Centroid
+> RETENTIONTIME:281.62
+> Num Peaks:165
+> 307.1573 299174880
+> 147.0654 298860831
+> 149.0447 287809889
+> 218.1066 118274758
+> 189.076 112486871
+> 364.1787 75134143
+> 191.0916 52526567
+> 308.1579 52057158
+> ...
+> ```
+>
+> > Negative ion mode
+> >
+> > You might wonder how can the ionisation mode (_IONMODE_) for GC-MS data be negative when using electron impact (EI+) ionization. This is, of course, incorrect. This is actually just a default behaviour of **RAMClustR**. We can optionally change this by providing **RAMClustR** an experiment definition file. This file can be created manually or using the {% tool [RAMClustR define experiment](toolshed.g2.bx.psu.edu/repos/recetox/ramclustr_define_experiment/ramclustr_define_experiment/1.0.2) %} tool. There we can specify annotations such as what instrument we used or ionisation mode (which was EI+ in our case), and this will be transfered to the `.msp` file. Finally, we can provide such a file as an input to **RAMClustR** in the _Extras_ inputs section.
+> >
+> {: .details}
>
{: .hands_on}
diff --git a/topics/transcriptomics/tutorials/rna-seq-bash-star-align/tutorial.md b/topics/transcriptomics/tutorials/rna-seq-bash-star-align/tutorial.md
index 00e8cc5e0a2116..5025fbdcc93fc6 100644
--- a/topics/transcriptomics/tutorials/rna-seq-bash-star-align/tutorial.md
+++ b/topics/transcriptomics/tutorials/rna-seq-bash-star-align/tutorial.md
@@ -68,7 +68,7 @@ The "Data Upload" process is the only one in this tutorial that takes place dire
> Data upload
>
-> Import the FASTQ file pairs from [Zenodo]({{ page.zenodo_link }}) or a data library:
+> 1. Import the FASTQ file pairs from [Zenodo]({{ page.zenodo_link }}) or a data library:
> - `GSM461177` (untreated): `GSM461177_1` and `GSM461177_2`
> - `GSM461180` (treated): `GSM461180_1` and `GSM461180_2`
>
@@ -79,9 +79,9 @@ The "Data Upload" process is the only one in this tutorial that takes place dire
> {{ page.zenodo_link }}/files/GSM461180_2.fastqsanger
> ```
>
-> {% snippet faqs/galaxy/datasets_import_via_link.md %}
+> 2. {% snippet faqs/galaxy/datasets_import_via_link.md %}
>
-> {% snippet faqs/galaxy/datasets_import_from_data_library.md %}
+> 3. {% snippet faqs/galaxy/datasets_import_from_data_library.md %}
>
> >
> >
@@ -98,12 +98,11 @@ The "Data Upload" process is the only one in this tutorial that takes place dire
> >
> {: .comment}
>
-> Change the datatype from `fastqsanger` to `fastq`.
+> 4. Change the datatype from `fastqsanger` to `fastq`.
>
> {% snippet faqs/galaxy/datasets_change_datatype.md datatype="fastq" %}
>
->
-> We also need to import two more files, essential for the alignment operation (and basically every alignment procedure): the organism's reference genome (here *D. melanogaster*) and the organism's gene annotation.
+> 5. We also need to import two more files, essential for the alignment operation (and basically every alignment procedure): the organism's reference genome (here *D. melanogaster*) and the organism's gene annotation.
> Those can be aquired directly via link and Galaxy's data library as described above. For this tutorial we are going to use the files [dm6.fa.gz](https://hgdownload.soe.ucsc.edu/goldenPath/dm6/bigZips/dm6.fa.gz) and [Drosophila_melanogaster.BDGP6.87.gtf (dm6)](https://usegalaxy.eu/libraries/folders/F30cab321d898d2fb/dataset/02c5f7fcdb6bf41f). Note that it is essential to convert genome's file from `*.fa.gz` to `*.fa`. That is easy now that we have already used the same method to convert `fastqsanger` to `fastq`. Remember to change the name of the file, too, in your working history as Galaxy will not do it automatically. Doing so will prevent any confusions later on.
>
> {% snippet faqs/galaxy/datasets_rename.md name="dm6.fa" %}