NEW LESSON ENA sequence submission #2241
Annotations
10 errors and 5 warnings
Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L113
[rdjsonl] reported by reviewdog ๐ถ
Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.
Raw Output:
{"message":"Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":113,"column":196},"end":{"line":113,"column":202}}},"severity":"ERROR","code":{"value":"GTN:005","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn005"},"suggestions":[{"text":"[Something better here]","range":{"start":{"line":113,"column":196},"end":{"line":113,"column":202}}}]}
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L171
[rdjsonl] reported by reviewdog ๐ถ
Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.
Raw Output:
{"message":"Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":171,"column":296},"end":{"line":171,"column":302}}},"severity":"ERROR","code":{"value":"GTN:005","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn005"},"suggestions":[{"text":"[Something better here]","range":{"start":{"line":171,"column":296},"end":{"line":171,"column":302}}}]}
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L277
[rdjsonl] reported by reviewdog ๐ถ
Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.
Raw Output:
{"message":"Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":277,"column":75},"end":{"line":277,"column":81}}},"severity":"ERROR","code":{"value":"GTN:005","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn005"},"suggestions":[{"text":"[Something better here]","range":{"start":{"line":277,"column":75},"end":{"line":277,"column":81}}}]}
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L308
[rdjsonl] reported by reviewdog ๐ถ
Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.
Raw Output:
{"message":"Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":308,"column":170},"end":{"line":308,"column":176}}},"severity":"ERROR","code":{"value":"GTN:005","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn005"},"suggestions":[{"text":"[Something better here]","range":{"start":{"line":308,"column":170},"end":{"line":308,"column":176}}}]}
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L489
[rdjsonl] reported by reviewdog ๐ถ
Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.
Raw Output:
{"message":"Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":489,"column":162},"end":{"line":489,"column":168}}},"severity":"ERROR","code":{"value":"GTN:005","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn005"},"suggestions":[{"text":"[Something better here]","range":{"start":{"line":489,"column":162},"end":{"line":489,"column":168}}}]}
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L566
[rdjsonl] reported by reviewdog ๐ถ
Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.
Raw Output:
{"message":"Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":566,"column":574},"end":{"line":566,"column":580}}},"severity":"ERROR","code":{"value":"GTN:005","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn005"},"suggestions":[{"text":"[Something better here]","range":{"start":{"line":566,"column":574},"end":{"line":566,"column":580}}}]}
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L608
[rdjsonl] reported by reviewdog ๐ถ
Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.
Raw Output:
{"message":"Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":608,"column":45},"end":{"line":608,"column":51}}},"severity":"ERROR","code":{"value":"GTN:005","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn005"},"suggestions":[{"text":"[Something better here]","range":{"start":{"line":608,"column":45},"end":{"line":608,"column":51}}}]}
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L642
[rdjsonl] reported by reviewdog ๐ถ
Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.
Raw Output:
{"message":"Please do not use 'here' as your link title, it is [bad for accessibility](https://usability.yale.edu/web-accessibility/articles/links#link-text). Instead try restructuring your sentence to have useful descriptive text in the link.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":642,"column":45},"end":{"line":642,"column":51}}},"severity":"ERROR","code":{"value":"GTN:005","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn005"},"suggestions":[{"text":"[Something better here]","range":{"start":{"line":642,"column":45},"end":{"line":642,"column":51}}}]}
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Check Tutorial Formatting
reviewdog: Too many results (annotations) in diff.
You may miss some annotations due to GitHub limitation for annotation created by logging command.
Please check GitHub Actions log console to see all results.
Limitation:
- 10 warning annotations and 10 error annotations per step
- 50 annotations per job (sum of annotations from all the steps)
- 50 annotations per run (separate from the job annotations, these annotations aren't created by users)
Source: https://github.community/t5/GitHub-Actions/Maximum-number-of-annotations-that-can-be-created-using-GitHub/m-p/39085
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/lncrna/tutorial.md#L193
[rdjsonl] reported by reviewdog ๐ถ
You have used the full tool URL to a specific server, here we only need the tool ID portion.
Raw Output:
{"message":"You have used the full tool URL to a specific server, here we only need the tool ID portion.","location":{"path":"./topics/genome-annotation/tutorials/lncrna/tutorial.md","range":{"start":{"line":193,"column":3},"end":{"line":193,"column":103}}},"severity":"ERROR","code":{"value":"GTN:009","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn009"},"suggestions":[{"text":"{% tool [concatenate](.bx.psu.edu/view/bgruening/text_processing/f46f0e4f75c4) %}","range":{"start":{"line":193,"column":3},"end":{"line":193,"column":103}}}]}
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The following actions uses node12 which is deprecated and will be forced to run on node16: actions/checkout@v2, actions/setup-python@v2, actions/cache@v2. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L275
[rdjsonl] reported by reviewdog ๐ถ
This looks like a heading, but isn't. Please use proper semantic headings where possible. You should check the heading level of this suggestion, rather than accepting the change as-is.
Raw Output:
{"message":"This looks like a heading, but isn't. Please use proper semantic headings where possible. You should check the heading level of this suggestion, rather than accepting the change as-is.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":275,"column":3},"end":{"line":275,"column":21}}},"severity":"WARNING","code":{"value":"GTN:020","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn020"},"suggestions":[{"text":"### Count Summary file","range":{"start":{"line":275,"column":3},"end":{"line":275,"column":21}}}]}
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L409
[rdjsonl] reported by reviewdog ๐ถ
This looks like a heading, but isn't. Please use proper semantic headings where possible. You should check the heading level of this suggestion, rather than accepting the change as-is.
Raw Output:
{"message":"This looks like a heading, but isn't. Please use proper semantic headings where possible. You should check the heading level of this suggestion, rather than accepting the change as-is.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":409,"column":3},"end":{"line":409,"column":20}}},"severity":"WARNING","code":{"value":"GTN:020","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn020"},"suggestions":[{"text":"### Gene Summary file","range":{"start":{"line":409,"column":3},"end":{"line":409,"column":20}}}]}
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L433
[rdjsonl] reported by reviewdog ๐ถ
This looks like a heading, but isn't. Please use proper semantic headings where possible. You should check the heading level of this suggestion, rather than accepting the change as-is.
Raw Output:
{"message":"This looks like a heading, but isn't. Please use proper semantic headings where possible. You should check the heading level of this suggestion, rather than accepting the change as-is.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":433,"column":3},"end":{"line":433,"column":21}}},"severity":"WARNING","code":{"value":"GTN:020","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn020"},"suggestions":[{"text":"### sgRNA summary file","range":{"start":{"line":433,"column":3},"end":{"line":433,"column":21}}}]}
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Check Tutorial Formatting:
topics/genome-annotation/tutorials/crispr-screen/tutorial.md#L456
[rdjsonl] reported by reviewdog ๐ถ
This looks like a heading, but isn't. Please use proper semantic headings where possible. You should check the heading level of this suggestion, rather than accepting the change as-is.
Raw Output:
{"message":"This looks like a heading, but isn't. Please use proper semantic headings where possible. You should check the heading level of this suggestion, rather than accepting the change as-is.","location":{"path":"./topics/genome-annotation/tutorials/crispr-screen/tutorial.md","range":{"start":{"line":456,"column":3},"end":{"line":456,"column":13}}},"severity":"WARNING","code":{"value":"GTN:020","url":"https://github.com/galaxyproject/training-material/wiki/Error-Codes#gtn020"},"suggestions":[{"text":"### PDF report","range":{"start":{"line":456,"column":3},"end":{"line":456,"column":13}}}]}
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The logs for this run have expired and are no longer available.
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