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Add HRA fallopian tube NTR template (58 new terms) #3715
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49f6cf2
Add HRA fallopian tube NTR template (58 new terms)
zhengj2007 369fd6f
Merge branch 'master' into add-hra-fallopian_tube-ntr
dosumis f8777a6
Register hra-fallopian-tube templates with ODK
dosumis d26bc0b
Add catalog-v001.xml redirects for hra-fallopian-tube components
dosumis 348b64d
Fix hra-fallopian-tube template build
dosumis 6379550
Set intramural muscle layer parents in fallopian tube template
zhengj2007 97ca8c6
Merge branch 'master' into add-hra-fallopian_tube-ntr
dosumis 1ca3f2a
Address curator feedback on HRA fallopian tube template
github-actions[bot] 8f9da52
Move report artifacts out of src/templates to bulk_ntr_workflow/outputs/
dosumis 28f8e76
Merge branch 'master' into add-hra-fallopian_tube-ntr
dosumis 804df02
Apply suggestion from @ai4c-agent[bot]
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6 changes: 6 additions & 0 deletions
6
bulk_ntr_workflow/outputs/hra-fallopian-tube-reports/candidates.tsv
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,6 @@ | ||
| label as_iri uberon_id note | ||
| mucosa of fallopian tube infundibulum UBERON:0005049 confirmed_match (confidence: high) | ||
| muscle layer of oviduct infundibulum UBERON:0007182 confirmed_match (confidence: high) | ||
| serosa of fallopian tube infundibulum UBERON:0007181 confirmed_match (confidence: high) | ||
| inner muscle layer of fallopian tube infundibulum UBERON:0012368 possible_match (UBERON:0012368 'circular muscle layer of muscular coat' is the general term for inner circular muscle layers with synonyms 'inner muscularis' and 'inner muscularis layer'. Could serve as genus for this specific infundibulum circular layer.) | ||
| outer muscle layer of fallopian tube infundibulum UBERON:0012369 possible_match (UBERON:0012369 'longitudinal muscle layer of muscular coat' is the general term for outer longitudinal muscle layers with synonyms 'outer muscularis' and 'outer muscularis layer'. Could serve as genus for this specific infundibulum longitudinal layer.) |
38 changes: 38 additions & 0 deletions
38
bulk_ntr_workflow/outputs/hra-fallopian-tube-reports/errors.tsv
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| Original file line number | Diff line number | Diff line change |
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| @@ -0,0 +1,38 @@ | ||
| label as_iri issue_type parent_id parent_label detail | ||
| basement membrane of fallopian tube ampulla https://purl.org/ccf/ASCTB-TEMP_basement-membrane-of-fallopian-tube-ampulla asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-ampulla wall of Fallopian tube ampulla Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| basement membrane of fallopian tube infundibulum https://purl.org/ccf/ASCTB-TEMP_basement-membrane-of-fallopian-tube-infundibulum asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-infundibulum wall of Fallopian tube infundibulum Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| basement membrane of fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_basement-membrane-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-intramural-segment wall of Fallopian tube intramural segment Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| basement membrane of fallopian tube isthmus https://purl.org/ccf/ASCTB-TEMP_basement-membrane-of-fallopian-tube-isthmus asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-isthmus wall of Fallopian tube isthmus Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| fluid of fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_fluid-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_intramural-segment-of-fallopian-tube intramural segment of Fallopian tube Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| inner muscle layer of fallopian tube ampulla https://purl.org/ccf/ASCTB-TEMP_inner-muscle-layer-of-fallopian-tube-ampulla asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-ampulla muscle layer of oviduct ampulla Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| inner muscle layer of fallopian tube infundibulum https://purl.org/ccf/ASCTB-TEMP_inner-muscle-layer-of-fallopian-tube-infundibulum asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-infundibulum muscle layer of oviduct infundibulum Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| inner muscle layer of fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_inner-muscle-layer-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-intramural-segment muscle layer of oviduct intramural segment Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| inner muscle layer of fallopian tube isthmus https://purl.org/ccf/ASCTB-TEMP_inner-muscle-layer-of-fallopian-tube-isthmus asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-isthmus muscle layer of oviduct isthmus Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| lamina propria of Fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_lamina-propria-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_intramural-segment-of-fallopian-tube intramural segment of Fallopian tube Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| lymphatic of mesosalpinx https://purl.org/ccf/ASCTB-TEMP_lymphatic-of-mesosalpinx asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_serous-membrane-lining-of-mesosalpinx serous membrane lining of mesosalpinx Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| middle muscle layer of fallopian tube ampulla https://purl.org/ccf/ASCTB-TEMP_middle-muscle-layer-of-fallopian-tube-ampulla asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-ampulla muscle layer of oviduct ampulla Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| middle muscle layer of fallopian tube infundibulum https://purl.org/ccf/ASCTB-TEMP_middle-muscle-layer-of-fallopian-tube-infundibulum asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-infundibulum muscle layer of oviduct infundibulum Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| middle muscle layer of fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_middle-muscle-layer-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-intramural-segment muscle layer of oviduct intramural segment Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| middle muscle layer of fallopian tube isthmus https://purl.org/ccf/ASCTB-TEMP_middle-muscle-layer-of-fallopian-tube-isthmus asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-isthmus muscle layer of oviduct isthmus Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| mucosa of fallopian tube ampulla https://purl.org/ccf/ASCTB-TEMP_mucosa-of-fallopian-tube-ampulla asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_plica-of-fallopian-tube-ampulla plica of Fallopian tube ampulla Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| mucosa of fallopian tube infundibulum https://purl.org/ccf/ASCTB-TEMP_mucosa-of-fallopian-tube-infundibulum asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_plica-of-fallopian-tube-infundibulum plica of Fallopian tube infundibulum Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| mucosa of fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_mucosa-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_plica-of-fallopian-tube-intramural-segment plica of Fallopian tube intramural segment Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| mucosa of fallopian tube isthmus https://purl.org/ccf/ASCTB-TEMP_mucosa-of-fallopian-tube-isthmus asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_plica-of-fallopian-tube-isthmus plica of Fallopian tube isthmus Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| muscle layer of oviduct ampulla https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-ampulla asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-ampulla wall of Fallopian tube ampulla Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| muscle layer of oviduct infundibulum https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-infundibulum asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-infundibulum wall of Fallopian tube infundibulum Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| muscle layer of oviduct intramural segment https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-intramural-segment wall of Fallopian tube intramural segment Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| muscle layer of oviduct isthmus https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-isthmus asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-isthmus wall of Fallopian tube isthmus Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| nerve of fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_nerve-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_intramural-segment-of-fallopian-tube intramural segment of Fallopian tube Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| nerve of mesosalpinx https://purl.org/ccf/ASCTB-TEMP_nerve-of-mesosalpinx asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_serous-membrane-lining-of-mesosalpinx serous membrane lining of mesosalpinx Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| outer muscle layer of fallopian tube ampulla https://purl.org/ccf/ASCTB-TEMP_outer-muscle-layer-of-fallopian-tube-ampulla asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-ampulla muscle layer of oviduct ampulla Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| outer muscle layer of fallopian tube infundibulum https://purl.org/ccf/ASCTB-TEMP_outer-muscle-layer-of-fallopian-tube-infundibulum asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-infundibulum muscle layer of oviduct infundibulum Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| outer muscle layer of fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_outer-muscle-layer-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-intramural-segment muscle layer of oviduct intramural segment Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| outer muscle layer of fallopian tube isthmus https://purl.org/ccf/ASCTB-TEMP_outer-muscle-layer-of-fallopian-tube-isthmus asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_muscle-layer-of-oviduct-isthmus muscle layer of oviduct isthmus Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| plica of fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_plica-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_intramural-segment-of-fallopian-tube intramural segment of Fallopian tube Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| serosa of fallopian tube ampulla https://purl.org/ccf/ASCTB-TEMP_serosa-of-fallopian-tube-ampulla asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-ampulla wall of Fallopian tube ampulla Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| serosa of fallopian tube infundibulum https://purl.org/ccf/ASCTB-TEMP_serosa-of-fallopian-tube-infundibulum asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-infundibulum wall of Fallopian tube infundibulum Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| serosa of fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_serosa-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-intramural-segment wall of Fallopian tube intramural segment Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| serosa of fallopian tube isthmus https://purl.org/ccf/ASCTB-TEMP_serosa-of-fallopian-tube-isthmus asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-isthmus wall of Fallopian tube isthmus Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| vasculature of Fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_vasculature-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_intramural-segment-of-fallopian-tube intramural segment of Fallopian tube Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| vasculature of mesosalpinx https://purl.org/ccf/ASCTB-TEMP_vasculature-of-mesosalpinx asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_serous-membrane-lining-of-mesosalpinx serous membrane lining of mesosalpinx Parent not yet in UBERON; subagent should search OLS4 for correct parent | ||
| wall of fallopian tube intramural segment https://purl.org/ccf/ASCTB-TEMP_wall-of-fallopian-tube-intramural-segment asctb_temp_parent https://purl.org/ccf/ASCTB-TEMP_intramural-segment-of-fallopian-tube intramural segment of Fallopian tube Parent not yet in UBERON; subagent should search OLS4 for correct parent |
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🟡 IMPORTANT — unintended downgrade of
actions/checkout. This PR branch pinsactions/checkout@v4, butmaster(as of commit651f79c, the release merged into this branch on97ca8c6) already usesactions/checkout@v6. This looks like a stale merge-conflict resolution that reverted the upgrade rather than an intentional change (this file isn't otherwise related to the fallopian tube NTR work). Suggest restoringactions/checkout@v6to match master and avoid silently reintroducing an older, unsupported action version into the docs-deploy workflow.