Pathway: Semantic engineer by joeflack4 · Pull Request #313 · OBOAcademy/obook

joeflack4 · 2022-11-29T16:56:55Z

Updates

- Add: Pathway: Semantic Engineer
- Update: Pathway: Ontology Engineer
- Update: .gitignore: Added .idea/ for JetBrains IDEs

joeflack4 · 2022-11-29T16:57:38Z

mkdocs.yml

      - Ontology Curator GO-style: pathways/ontology-curator-go-style.md
      - Ontology Curator OBI-style: pathways/ontology-curator-obi-style.md
      - Ontology Engineer/Developer: pathways/ontology-engineer.md
+      - Semantic Engineer: pathways/semantic-engineer.md


I think there is a lot of overlap between "semantic engineer" and "ontology engineer". I used that one as a template instead of the "ontology curator: go" page. There's only one section in that page that isn't in "ontology engineer", and it is the "mindset" section.

I removed some items from these lists if it's something I haven't done/used before, but I wouldn't be surprised if that changes!

could we merge ontology engineer with semantic engineer then?

PS I didn't over think this pathway (was focusing on curator one) so happy for it to be fully revamped as semnatic engineer and taken over as so :)

There will always be a lot of overlap, but for me, the ontology engineer is focused on design patterns, modelling, logic, while the Semantic Software Engineer is focused on using ontologies in Software and Data pipelines.

Ontology Engineer sounds like Ontology/Semantic Architect! (I actually don't like to use 'architect' usually; sounds very Java)

joeflack4 · 2022-11-29T17:01:33Z

docs/pathways/semantic-engineer.md

+
+## Getting Set-up
+
+1. Download and install [GitHub Desktop](https://desktop.github.com/)


I don't use GitHub Desktop, but it's not bad. I have seen data managers and similar roles use it more often.

For a lot of these as well, I feel like if you have the title engineer or developer, a lot of this stuff will be mastered already, such as GitHub, or CLI. But for a junior engineer just starting out, or someone looking to become an engineer, I suppose it is indeed good to have some of these things in the list.

joeflack4 · 2022-11-29T17:07:03Z

docs/pathways/semantic-engineer.md

+1. [Cloning a Repo](../howto/clone-mondo-repo.md)
+1. [Creating pull requests](../howto/github-create-pull-request.md)
+
+### Learning ontology engineering


For this section, I kept everything from Ontology engineer except for these:

1. [Setting up a ODK repository](../tutorial/setting-up-project-odk.md) 1. [Developing an obo ontology](../lesson/developing-an-obo-ontology.md) 1. [Understanding product variants](../explanation/owl-format-variants.md) 1. [Dealing with large ontologies](../howto/deal-with-large-ontologies.md) 1. [Setting up slims](../howto/add-new-slim.md)

joeflack4 · 2022-11-29T17:07:39Z

docs/pathways/semantic-engineer.md

@@ -0,0 +1,61 @@
+# Semantic Engineer Pathway
+
+## Getting Set-up


For this section, I kept everything from Ontology Engineer except for this:

4. [Setting up your ID range](../howto/idrange.md)

joeflack4 · 2022-11-29T17:14:49Z

docs/pathways/semantic-engineer.md

+1. [Basics of SPARQL](../tutorial/sparql.md)
+1. [Setting up slims](../howto/add-new-slim.md)
+
+## Ontology Engineer How To Collection


For this section, I kept everything from Ontology engineer except for these:

- [Adding taxon restrictions](../howto/add-taxon-restrictions.md) - [Cloning a repo](../howto/clone-mondo-repo.md) - [Creating a github fork](../howto/github-create-fork.md) - [Creating a github pull request](../howto/github-create-pull-request.md) - [Setting up your ID range](../howto/idrange.md) - [Setting up ELK reasoner in protege](../howto/installing-elk-in-protege.md) - [Obsoleting terms](../howto/obsolete-term.md) - [Merging terms](../howto/merge-terms.md) - [Creating slims](../howto/add-new-slim.md) - [Setting up ODK](../howto/odk-setup.md) - [Switching ontologies](../howto/switching-ontologies.md)

joeflack4 · 2022-11-29T17:19:38Z

docs/pathways/ontology-engineer.md

 1. [Setting up a ODK repository](../tutorial/setting-up-project-odk.md)
 1. [Developing an obo ontology](../lesson/developing-an-obo-ontology.md)
 1. [Understanding product variants](../explanation/owl-format-variants.md)
-1. [Dealing with large ontologies](../howto/deal-with-large-ontologies.md)


Removed this from "learning..." section because it was in the "how to..." section.

joeflack4 · 2022-11-29T17:20:34Z

docs/pathways/ontology-engineer.md

- [Cloning a repo](../howto/clone-mondo-repo.md)
 - [Creating new terms](../howto/create-new-term.md)
- [Daily Curator Workflow](../howto/daily-curator-workflow.md)
+- [Daily Git Workflow (Curators and Engineers)](../howto/daily-curator-workflow.md)


Changed this because even though the page is curator focused, it is a useful workflow to know for engineers as well. Added word 'Git' because it seems focused on largely on that.

joeflack4 · 2022-11-29T17:21:46Z

docs/pathways/ontology-engineer.md


 - [Adding taxon restrictions](../howto/add-taxon-restrictions.md)
 - [Changing files in pull requests](../howto/change-files-pull-request.md)
- [Cloning a repo](../howto/clone-mondo-repo.md)


For the other ones I removed from the Ontology Engineer "how to" section, it's either because (a) it is very basic, e.g. cloning, and a quick google search away if really needed, or (b) it's already in another section of the same page.

- Update: .gitignore: Added .idea/ for JetBrains IDEs - Update: Pathway: Ontology Engineer

joeflack4 · 2022-11-29T17:27:16Z

docs/pathways/semantic-engineer.md

+1. [DOSDP Templates Basic Tutorial](../tutorial/dosdp-template.md)
+1. [Introduction to Managing DOSDP Templates in ODK](../tutorial/dosdp-odk.md)
+1. [Basics of SPARQL](../tutorial/sparql.md)
+1. OAK


@matentzn I probably got to the most important value-add right at the end, and didn't have much time to think/write about it. I added these 5 bullet points to the bottom of "learning semantic engineering", but I did not yet create pages for these.

shawntanzk · 2022-11-30T09:07:10Z

@joeflack4 thanks for doing this! looks awesome :)

joeflack4 marked this pull request as draft November 29, 2022 16:57

joeflack4 commented Nov 29, 2022

View reviewed changes

joeflack4 force-pushed the semantic-engineer branch from 7a09a35 to 6630939 Compare November 29, 2022 17:17

joeflack4 commented Nov 29, 2022

View reviewed changes

- Add: Pathway: Semantic Engineer

e8639cf

- Update: .gitignore: Added .idea/ for JetBrains IDEs - Update: Pathway: Ontology Engineer

joeflack4 force-pushed the semantic-engineer branch from 6630939 to e8639cf Compare November 29, 2022 17:25

joeflack4 commented Nov 29, 2022

View reviewed changes

joeflack4 requested a review from matentzn November 29, 2022 17:29

joeflack4 added the documentation Improvements or additions to documentation label Nov 29, 2022

joeflack4 mentioned this pull request Nov 29, 2022

Docs: Semantic engineer monarch-initiative/mondo-ingest#115

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		## Getting Set-up

		1. Download and install [GitHub Desktop](https://desktop.github.com/)

		@@ -0,0 +1,61 @@
		# Semantic Engineer Pathway

		## Getting Set-up

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shawntanzk commented Nov 30, 2022

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joeflack4 commented Nov 29, 2022 •

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