From 3e9198cf71587136d10fdd19533ad6b0468d68df Mon Sep 17 00:00:00 2001 From: Arsenios Chatzigeorgiou <49944135+arschat@users.noreply.github.com> Date: Wed, 9 Oct 2024 12:37:13 +0100 Subject: [PATCH 1/4] Extend atlas names --- docs/jsonBrowser/module.md | 2 +- .../module/project/hca_bionetwork.json | 27 ++++++++++++++----- json_schema/update_log.csv | 1 + 3 files changed, 23 insertions(+), 7 deletions(-) diff --git a/docs/jsonBrowser/module.md b/docs/jsonBrowser/module.md index 8eefbf26f..4a75f09d9 100644 --- a/docs/jsonBrowser/module.md +++ b/docs/jsonBrowser/module.md @@ -365,7 +365,7 @@ Location: module/project/hca_bionetwork.json Property name | Description | Type | Required? | Object reference? | User friendly name | Allowed values | Example --- | --- | --- | --- | --- | --- | --- | --- name | HCA Bionetwork the project is a part of (e.g. Kidney). | string | no | | Official HCA Bionetwork | Adipose, Breast, Development, Eye, Genetic Diversity, Gut, Heart, Immune, Kidney, Liver, Lung, Musculoskeletal, Nervous System, Oral & Craniofacial, Organoid, Pancreas, Reproduction, Skin | Kidney; Lung -hca_tissue_atlas | A field describing if the project is part of a HCA Tissue Atlas (e.g. Brain Alzheimer Atlas). | string | no | | HCA Tissue Atlas | Blood, Retina, Lung, Kidney, Gut, Eye, Brain | Blood Atlas +hca_tissue_atlas | A field describing if the project is part of a HCA Tissue Atlas (e.g. Brain Alzheimer Atlas). | string | no | | HCA Tissue Atlas | Adipose, Blood, Brain, Breast, Development, Eye, Eye - Other, GDN, Gut, Heart, Immune, Kidney, Liver, Lung, MSK, ORCF, Organoid-Endoderm, Organoid-Neural, Pancreas Retina, Reproduction, Skin | Blood Atlas hca_tissue_atlas_version | A field describing which version of the HCA Tissue Atlas is associated with the project (e.g. v1.0; v2.0) | string | no | | Official HCA Tissue Atlas Version | | v1.0; v2.0 atlas_project | A field describing if this project is the HCA Tissue Atlas project which integrates data from other datasets. | boolean | no | | Project Tissue Atlas Status | | Yes; No diff --git a/json_schema/module/project/hca_bionetwork.json b/json_schema/module/project/hca_bionetwork.json index 3eb42058c..992f2e720 100644 --- a/json_schema/module/project/hca_bionetwork.json +++ b/json_schema/module/project/hca_bionetwork.json @@ -48,14 +48,29 @@ "description": "A field describing if the project is part of a HCA Tissue Atlas (e.g. Brain Alzheimer Atlas). ", "type": "string", "enum": [ + "Adipose", "Blood", - "Retina", - "Lung", - "Kidney", - "Gut", + "Brain", + "Breast", + "Development", "Eye", - "Brain" - ], + "Eye - Other", + "GDN", + "Gut", + "Heart", + "Immune", + "Kidney", + "Liver", + "Lung", + "MSK", + "ORCF", + "Organoid-Endoderm", + "Organoid-Neural", + "Pancreas", + "Retina", + "Reproduction", + "Skin" + ], "user_friendly": "HCA Tissue Atlas", "guidelines": "For example: Blood Atlas", "example": "Blood Atlas" diff --git a/json_schema/update_log.csv b/json_schema/update_log.csv index 3231ff199..268d80bd3 100644 --- a/json_schema/update_log.csv +++ b/json_schema/update_log.csv @@ -1 +1,2 @@ Schema,Change type,Change message,Version,Date +module/project/hca_bionetwork,patch,Extend atlas names in hca_bionetwork,, \ No newline at end of file From 1c2ecfaab9844067436422c6b53619d87c7e0f65 Mon Sep 17 00:00:00 2001 From: Arsenios Chatzigeorgiou <49944135+arschat@users.noreply.github.com> Date: Wed, 9 Oct 2024 12:48:25 +0100 Subject: [PATCH 2/4] Fixed hca_tissue_atlas examples to match enum values --- docs/jsonBrowser/module.md | 2 +- json_schema/module/project/hca_bionetwork.json | 4 ++-- 2 files changed, 3 insertions(+), 3 deletions(-) diff --git a/docs/jsonBrowser/module.md b/docs/jsonBrowser/module.md index 4a75f09d9..b59673bd2 100644 --- a/docs/jsonBrowser/module.md +++ b/docs/jsonBrowser/module.md @@ -365,7 +365,7 @@ Location: module/project/hca_bionetwork.json Property name | Description | Type | Required? | Object reference? | User friendly name | Allowed values | Example --- | --- | --- | --- | --- | --- | --- | --- name | HCA Bionetwork the project is a part of (e.g. Kidney). | string | no | | Official HCA Bionetwork | Adipose, Breast, Development, Eye, Genetic Diversity, Gut, Heart, Immune, Kidney, Liver, Lung, Musculoskeletal, Nervous System, Oral & Craniofacial, Organoid, Pancreas, Reproduction, Skin | Kidney; Lung -hca_tissue_atlas | A field describing if the project is part of a HCA Tissue Atlas (e.g. Brain Alzheimer Atlas). | string | no | | HCA Tissue Atlas | Adipose, Blood, Brain, Breast, Development, Eye, Eye - Other, GDN, Gut, Heart, Immune, Kidney, Liver, Lung, MSK, ORCF, Organoid-Endoderm, Organoid-Neural, Pancreas Retina, Reproduction, Skin | Blood Atlas +hca_tissue_atlas | A field describing if the project is part of a HCA Tissue Atlas (e.g. Brain Alzheimer Atlas). | string | no | | HCA Tissue Atlas | Adipose, Blood, Brain, Breast, Development, Eye, Eye - Other, GDN, Gut, Heart, Immune, Kidney, Liver, Lung, MSK, ORCF, Organoid-Endoderm, Organoid-Neural, Pancreas Retina, Reproduction, Skin | Retina hca_tissue_atlas_version | A field describing which version of the HCA Tissue Atlas is associated with the project (e.g. v1.0; v2.0) | string | no | | Official HCA Tissue Atlas Version | | v1.0; v2.0 atlas_project | A field describing if this project is the HCA Tissue Atlas project which integrates data from other datasets. | boolean | no | | Project Tissue Atlas Status | | Yes; No diff --git a/json_schema/module/project/hca_bionetwork.json b/json_schema/module/project/hca_bionetwork.json index 992f2e720..757d234d3 100644 --- a/json_schema/module/project/hca_bionetwork.json +++ b/json_schema/module/project/hca_bionetwork.json @@ -72,8 +72,8 @@ "Skin" ], "user_friendly": "HCA Tissue Atlas", - "guidelines": "For example: Blood Atlas", - "example": "Blood Atlas" + "guidelines": "For example: Retina", + "example": "Retina" }, "hca_tissue_atlas_version": { "description": "A field describing which version of the HCA Tissue Atlas is associated with the project (e.g. v1.0; v2.0)", From 2a9cfa902f6093d9c102154ddc1345c37dd2df3e Mon Sep 17 00:00:00 2001 From: Arsenios Chatzigeorgiou <49944135+arschat@users.noreply.github.com> Date: Thu, 10 Oct 2024 09:51:34 +0100 Subject: [PATCH 3/4] Remove Eye - Other atlas name --- docs/jsonBrowser/module.md | 2 +- json_schema/module/project/hca_bionetwork.json | 1 - 2 files changed, 1 insertion(+), 2 deletions(-) diff --git a/docs/jsonBrowser/module.md b/docs/jsonBrowser/module.md index b59673bd2..af2e62d83 100644 --- a/docs/jsonBrowser/module.md +++ b/docs/jsonBrowser/module.md @@ -365,7 +365,7 @@ Location: module/project/hca_bionetwork.json Property name | Description | Type | Required? | Object reference? | User friendly name | Allowed values | Example --- | --- | --- | --- | --- | --- | --- | --- name | HCA Bionetwork the project is a part of (e.g. Kidney). | string | no | | Official HCA Bionetwork | Adipose, Breast, Development, Eye, Genetic Diversity, Gut, Heart, Immune, Kidney, Liver, Lung, Musculoskeletal, Nervous System, Oral & Craniofacial, Organoid, Pancreas, Reproduction, Skin | Kidney; Lung -hca_tissue_atlas | A field describing if the project is part of a HCA Tissue Atlas (e.g. Brain Alzheimer Atlas). | string | no | | HCA Tissue Atlas | Adipose, Blood, Brain, Breast, Development, Eye, Eye - Other, GDN, Gut, Heart, Immune, Kidney, Liver, Lung, MSK, ORCF, Organoid-Endoderm, Organoid-Neural, Pancreas Retina, Reproduction, Skin | Retina +hca_tissue_atlas | A field describing if the project is part of a HCA Tissue Atlas (e.g. Brain Alzheimer Atlas). | string | no | | HCA Tissue Atlas | Adipose, Blood, Brain, Breast, Development, Eye, GDN, Gut, Heart, Immune, Kidney, Liver, Lung, MSK, ORCF, Organoid-Endoderm, Organoid-Neural, Pancreas Retina, Reproduction, Skin | Retina hca_tissue_atlas_version | A field describing which version of the HCA Tissue Atlas is associated with the project (e.g. v1.0; v2.0) | string | no | | Official HCA Tissue Atlas Version | | v1.0; v2.0 atlas_project | A field describing if this project is the HCA Tissue Atlas project which integrates data from other datasets. | boolean | no | | Project Tissue Atlas Status | | Yes; No diff --git a/json_schema/module/project/hca_bionetwork.json b/json_schema/module/project/hca_bionetwork.json index 757d234d3..bb3411505 100644 --- a/json_schema/module/project/hca_bionetwork.json +++ b/json_schema/module/project/hca_bionetwork.json @@ -54,7 +54,6 @@ "Breast", "Development", "Eye", - "Eye - Other", "GDN", "Gut", "Heart", From 8e5eb3df53dbf0a75f5029b3c08234a4f3c46601 Mon Sep 17 00:00:00 2001 From: Arsenios Chatzigeorgiou <49944135+arschat@users.noreply.github.com> Date: Mon, 14 Oct 2024 10:12:45 +0100 Subject: [PATCH 4/4] Ran release_prepare.py script. --- changelog.md | 8 ++++++++ json_schema/update_log.csv | 1 - json_schema/versions.json | 8 ++++---- 3 files changed, 12 insertions(+), 5 deletions(-) diff --git a/changelog.md b/changelog.md index 0f08774f1..2fbf9d432 100644 --- a/changelog.md +++ b/changelog.md @@ -7,6 +7,14 @@ and (starting with v4.0.0) this project adheres to [Semantic Versioning](http:// ## [Unreleased](https://github.com/HumanCellAtlas/metadata-schema/tree/staging) +### [module/project/hca_bionetwork.json - v1.0.2] - 2024-10-14 +### Added +Added atlas names in hca_bionetwork + +### [type/project/project.json - v19.0.1] - 2024-10-14 +### Added +Added atlas names in hca_bionetwork + ## [Released](https://github.com/HumanCellAtlas/metadata-schema/) ### [module/biomaterial/disease_profile.json - v1.0.0] - 2024-09-30 diff --git a/json_schema/update_log.csv b/json_schema/update_log.csv index 268d80bd3..3231ff199 100644 --- a/json_schema/update_log.csv +++ b/json_schema/update_log.csv @@ -1,2 +1 @@ Schema,Change type,Change message,Version,Date -module/project/hca_bionetwork,patch,Extend atlas names in hca_bionetwork,, \ No newline at end of file diff --git a/json_schema/versions.json b/json_schema/versions.json index e1db370b7..9eb283285 100644 --- a/json_schema/versions.json +++ b/json_schema/versions.json @@ -1,5 +1,5 @@ { - "last_update_date": "2024-09-30T14:15:52Z", + "last_update_date": "2024-10-14T10:11:29Z", "version_numbers": { "core": { "biomaterial": { @@ -74,7 +74,7 @@ "project": { "contact": "9.0.0", "funder": "2.0.0", - "hca_bionetwork": "1.0.1", + "hca_bionetwork": "1.0.2", "publication": "7.0.0" }, "protocol": { @@ -112,7 +112,7 @@ "process": "9.2.0" }, "project": { - "project": "19.0.0" + "project": "19.0.1" }, "protocol": { "analysis": { @@ -139,4 +139,4 @@ } } } -} +} \ No newline at end of file