Skip to content

Import MONDO dermatophytosis subtypes into EFO#2650

Draft
Copilot wants to merge 2 commits intomasterfrom
copilot/import-mondo-terms-dermatophytosis
Draft

Import MONDO dermatophytosis subtypes into EFO#2650
Copilot wants to merge 2 commits intomasterfrom
copilot/import-mondo-terms-dermatophytosis

Conversation

Copy link
Copy Markdown
Contributor

Copilot AI commented Mar 17, 2026

Imports four MONDO terms for dermatophytosis subtypes. EFO_0007512 (tinea pedis) was already obsoleted in v3.88.0 with term_replaced_by MONDO_0005984; MONDO_0005984 was already present in IRI dependencies.

New terms added to iri_dependencies/mondo_terms.txt

  • MONDO_0004678 — dermatophytosis (parent)
  • MONDO_0001461 — tinea corporis (→ MONDO_0004678)
  • MONDO_0000245 — tinea imbricata (→ MONDO_0001461)
  • MONDO_0001405 — dermatophytosis of groin and perianal area (→ MONDO_0004678)

Hierarchy

Hierarchy flows from the existing MONDO structure via BOT extraction — no subclasses.csv assertions required:

MONDO_0004678 dermatophytosis
├── MONDO_0005984 tinea pedis          (already imported)
├── MONDO_0001461 tinea corporis
│   └── MONDO_0000245 tinea imbricata
└── MONDO_0001405 dermatophytosis of groin and perianal area

imports/mondo_terms.txt and imports/mondo_import.owl regenerated from updated MONDO mirror; efo-edit.owl normalized.

Warning

Firewall rules blocked me from connecting to one or more addresses (expand for details)

I tried to connect to the following addresses, but was blocked by firewall rules:

  • https://api.github.com/graphql
    • Triggering command: /usr/bin/gh gh issue list --limit 5 (http block)

If you need me to access, download, or install something from one of these locations, you can either:

Original prompt

This section details on the original issue you should resolve

<issue_title>[Import] Request to import MONDO terms for dermatophytosis subtypes</issue_title>
<issue_description>### Term(s) to be imported

MONDO_0005984 tinea pedis || MONDO_0001461 tinea corporis || MONDO_0000245 tinea imbricata || MONDO_0001405 dermatophytosis of groin and perianal area

Parent term(s)

MONDO_0004678 dermatophytosis || MONDO_0004678 dermatophytosis || MONDO_0001461 tinea corporis || MONDO_0004678 dermatophytosis

Any additional comments

The content in the parent term field means: all terms should be direct child terms of dermatophytosis, except for tinea imbricata, which should be a child of tinea corporis. This reflects the existing MONDO hierarchy.

Most of these do not exist in EFO yet. But tinea pedis already exists as EFO_0007512 tinea pedis - I think MONDO_0005984 tinea pedis should replace this existing EFO term.

</issue_description>

Comments on the Issue (you are @copilot in this section)


💡 You can make Copilot smarter by setting up custom instructions, customizing its development environment and configuring Model Context Protocol (MCP) servers. Learn more Copilot coding agent tips in the docs.

…_0001461, MONDO_0000245, MONDO_0001405)

Co-authored-by: aleixpuigb <94959119+aleixpuigb@users.noreply.github.com>
Copilot AI changed the title [WIP] [Import] Request to import MONDO terms for dermatophytosis subtypes Import MONDO dermatophytosis subtypes into EFO Mar 17, 2026
Copilot AI requested a review from aleixpuigb March 17, 2026 14:01
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Labels

None yet

Projects

None yet

Development

Successfully merging this pull request may close these issues.

[Import] Request to import MONDO terms for dermatophytosis subtypes

2 participants