Merge pull request #36 from ELIXIR-Belgium/checklist_update

Automatic update ENA templates
ELIXIR-Belgium · May 27, 2024 · 50b5d9b · 50b5d9b
2 parents 7531c76 + 187228c
commit 50b5d9b
Show file tree

Hide file tree

Showing 70 changed files with 10,909 additions and 0 deletions.
diff --git a/README.md b/README.md
@@ -49,6 +49,10 @@ This repository contains tabular-format and xlsx spreadsheet metadata templates
 | [ERC000051](./templates/ERC000051) | PDX Checklist | Minimum information required for reporting samples associated with patient-derived xenograft (PDX) models or patient samples |
 | [ERC000052](./templates/ERC000052) | HoloFood Checklist | Minimum information required for reporting HoloFood samples. HoloFood is a 'hologenomic' approach that will improve the efficiency of food production systems by understanding the biomolecular and physiological processes affected by incorporating feed additives and novel sustainable feeds in farmed animals (https://www.holofood.eu/). |
 | [ERC000053](./templates/ERC000053) | Tree of Life Checklist | Minimum information required for reporting samples associated with the Tree of Life Programme (https://www.sanger.ac.uk/programme/tree-of-life/). |
+| [ERC000055](./templates/ERC000055) | GSC MIxS agriculture | Genomic Standards Consortium package extension for reporting of measurements and observations obtained from the environment where the sample was obtained. By choosing the environmental package, a selection of fields can be made from a relevant subsets of the GSC terms. |
+| [ERC000056](./templates/ERC000056) | GSC MIxS Food and Production | Genomic Standards Consortium package extension for reporting of measurements and observations obtained from the environment where the sample was obtained. By choosing the environmental package, a selection of fields can be made from a relevant subsets of the GSC terms. This package is a combination of the four food extensions (MIxS-food-animal and animal feed, MIxS-food-farm environment, MIxS-food-food production facility, MIxS-food-human foods). |
+| [ERC000057](./templates/ERC000057) | GSC MIxS Symbiont | Genomic Standards Consortium package extension for reporting of measurements and observations obtained from the environment where the sample was obtained. By choosing the environmental package, a selection of fields can be made from a relevant subsets of the GSC terms. |
+| [ERC000058](./templates/ERC000058) | GSC MIxS Hydrocarbon | Genomic Standards Consortium package extension for reporting of measurements and observations obtained from the environment where the sample was obtained. By choosing the environmental package, a selection of fields can be made from a relevant subsets of the GSC terms. |
 <!-- TABLE END -->
 
 ## Tabular metadata templates (*.tsv)

diff --git a/checklist_overview.json b/checklist_overview.json
@@ -318,5 +318,37 @@
         "dataType": "CHECKLIST",
         "status": 4,
         "statusDescription": "public"
+    },
+    {
+        "accession": "ERC000055",
+        "description": "Genomic Standards Consortium package extension for reporting of measurements and observations obtained from the environment where the sample was obtained. By choosing the environmental package, a selection of fields can be made from a relevant subsets of the GSC terms.",
+        "name": "GSC MIxS agriculture",
+        "dataType": "CHECKLIST",
+        "status": 4,
+        "statusDescription": "public"
+    },
+    {
+        "accession": "ERC000056",
+        "description": "Genomic Standards Consortium package extension for reporting of measurements and observations obtained from the environment where the sample was obtained. By choosing the environmental package, a selection of fields can be made from a relevant subsets of the GSC terms. This package is a combination of the four food extensions (MIxS-food-animal and animal feed, MIxS-food-farm environment, MIxS-food-food production facility, MIxS-food-human foods).",
+        "name": "GSC MIxS Food and Production",
+        "dataType": "CHECKLIST",
+        "status": 4,
+        "statusDescription": "public"
+    },
+    {
+        "accession": "ERC000057",
+        "description": "Genomic Standards Consortium package extension for reporting of measurements and observations obtained from the environment where the sample was obtained. By choosing the environmental package, a selection of fields can be made from a relevant subsets of the GSC terms.",
+        "name": "GSC MIxS Symbiont",
+        "dataType": "CHECKLIST",
+        "status": 4,
+        "statusDescription": "public"
+    },
+    {
+        "accession": "ERC000058",
+        "description": "Genomic Standards Consortium package extension for reporting of measurements and observations obtained from the environment where the sample was obtained. By choosing the environmental package, a selection of fields can be made from a relevant subsets of the GSC terms.",
+        "name": "GSC MIxS Hydrocarbon",
+        "dataType": "CHECKLIST",
+        "status": 4,
+        "statusDescription": "public"
     }
 ]
diff --git a/templates/ERC000011/metadata_template_ERC000011.xlsx b/templates/ERC000011/metadata_template_ERC000011.xlsx
diff --git a/templates/ERC000012/metadata_template_ERC000012.xlsx b/templates/ERC000012/metadata_template_ERC000012.xlsx
diff --git a/templates/ERC000013/metadata_template_ERC000013.xlsx b/templates/ERC000013/metadata_template_ERC000013.xlsx
diff --git a/templates/ERC000014/metadata_template_ERC000014.xlsx b/templates/ERC000014/metadata_template_ERC000014.xlsx
diff --git a/templates/ERC000015/metadata_template_ERC000015.xlsx b/templates/ERC000015/metadata_template_ERC000015.xlsx
diff --git a/templates/ERC000016/metadata_template_ERC000016.xlsx b/templates/ERC000016/metadata_template_ERC000016.xlsx
diff --git a/templates/ERC000017/metadata_template_ERC000017.xlsx b/templates/ERC000017/metadata_template_ERC000017.xlsx
diff --git a/templates/ERC000018/metadata_template_ERC000018.xlsx b/templates/ERC000018/metadata_template_ERC000018.xlsx
diff --git a/templates/ERC000019/metadata_template_ERC000019.xlsx b/templates/ERC000019/metadata_template_ERC000019.xlsx
diff --git a/templates/ERC000020/metadata_template_ERC000020.xlsx b/templates/ERC000020/metadata_template_ERC000020.xlsx
diff --git a/templates/ERC000021/metadata_template_ERC000021.xlsx b/templates/ERC000021/metadata_template_ERC000021.xlsx
diff --git a/templates/ERC000022/metadata_template_ERC000022.xlsx b/templates/ERC000022/metadata_template_ERC000022.xlsx
diff --git a/templates/ERC000023/metadata_template_ERC000023.xlsx b/templates/ERC000023/metadata_template_ERC000023.xlsx
diff --git a/templates/ERC000024/metadata_template_ERC000024.xlsx b/templates/ERC000024/metadata_template_ERC000024.xlsx
diff --git a/templates/ERC000025/metadata_template_ERC000025.xlsx b/templates/ERC000025/metadata_template_ERC000025.xlsx
diff --git a/templates/ERC000027/metadata_template_ERC000027.xlsx b/templates/ERC000027/metadata_template_ERC000027.xlsx
diff --git a/templates/ERC000028/metadata_template_ERC000028.xlsx b/templates/ERC000028/metadata_template_ERC000028.xlsx
diff --git a/templates/ERC000029/metadata_template_ERC000029.xlsx b/templates/ERC000029/metadata_template_ERC000029.xlsx
diff --git a/templates/ERC000030/metadata_template_ERC000030.xlsx b/templates/ERC000030/metadata_template_ERC000030.xlsx
diff --git a/templates/ERC000031/metadata_template_ERC000031.xlsx b/templates/ERC000031/metadata_template_ERC000031.xlsx
diff --git a/templates/ERC000032/metadata_template_ERC000032.xlsx b/templates/ERC000032/metadata_template_ERC000032.xlsx
diff --git a/templates/ERC000033/metadata_template_ERC000033.xlsx b/templates/ERC000033/metadata_template_ERC000033.xlsx
diff --git a/templates/ERC000034/metadata_template_ERC000034.xlsx b/templates/ERC000034/metadata_template_ERC000034.xlsx
diff --git a/templates/ERC000035/metadata_template_ERC000035.xlsx b/templates/ERC000035/metadata_template_ERC000035.xlsx
diff --git a/templates/ERC000036/metadata_template_ERC000036.xlsx b/templates/ERC000036/metadata_template_ERC000036.xlsx
diff --git a/templates/ERC000037/metadata_template_ERC000037.xlsx b/templates/ERC000037/metadata_template_ERC000037.xlsx
diff --git a/templates/ERC000038/metadata_template_ERC000038.xlsx b/templates/ERC000038/metadata_template_ERC000038.xlsx
diff --git a/templates/ERC000039/metadata_template_ERC000039.xlsx b/templates/ERC000039/metadata_template_ERC000039.xlsx
diff --git a/templates/ERC000040/metadata_template_ERC000040.xlsx b/templates/ERC000040/metadata_template_ERC000040.xlsx
diff --git a/templates/ERC000041/metadata_template_ERC000041.xlsx b/templates/ERC000041/metadata_template_ERC000041.xlsx
diff --git a/templates/ERC000043/metadata_template_ERC000043.xlsx b/templates/ERC000043/metadata_template_ERC000043.xlsx
diff --git a/templates/ERC000044/metadata_template_ERC000044.xlsx b/templates/ERC000044/metadata_template_ERC000044.xlsx
diff --git a/templates/ERC000045/metadata_template_ERC000045.xlsx b/templates/ERC000045/metadata_template_ERC000045.xlsx
diff --git a/templates/ERC000047/metadata_template_ERC000047.xlsx b/templates/ERC000047/metadata_template_ERC000047.xlsx
diff --git a/templates/ERC000048/metadata_template_ERC000048.xlsx b/templates/ERC000048/metadata_template_ERC000048.xlsx
diff --git a/templates/ERC000049/metadata_template_ERC000049.xlsx b/templates/ERC000049/metadata_template_ERC000049.xlsx
diff --git a/templates/ERC000050/metadata_template_ERC000050.xlsx b/templates/ERC000050/metadata_template_ERC000050.xlsx
diff --git a/templates/ERC000051/metadata_template_ERC000051.xlsx b/templates/ERC000051/metadata_template_ERC000051.xlsx
diff --git a/templates/ERC000052/metadata_template_ERC000052.xlsx b/templates/ERC000052/metadata_template_ERC000052.xlsx
diff --git a/templates/ERC000053/metadata_template_ERC000053.xlsx b/templates/ERC000053/metadata_template_ERC000053.xlsx