From 10fc30b5d67cde717f3822bfb31f0938b04ba2f0 Mon Sep 17 00:00:00 2001
From: Pradeep Bashyal <pbashyal@nmdp.org>
Date: Mon, 13 Oct 2025 18:15:22 -0500
Subject: [PATCH 1/3] Update README.md

---
 README.md | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/README.md b/README.md
index 2d7180b..5133f50 100644
--- a/README.md
+++ b/README.md
@@ -1,2 +1,4 @@
 # hfx
-HFX (Haplotype Frequecy eXchange) Format Specification
+HFX (Haplotype Frequency eXchange) Format Specification
+
+[hfx.schema.json](hfx.schema.json) is [JSON Schema](https://json-schema.org/) for publishing Haplotype Frequency in HFX format.
\ No newline at end of file

From 2ded058dc82ff0aae861ed9cbbf4f8745c4f6c00 Mon Sep 17 00:00:00 2001
From: Pradeep Bashyal <pbashyal@nmdp.org>
Date: Wed, 22 Oct 2025 11:09:27 -0500
Subject: [PATCH 2/3] change 'group' description.

---
 hfx.schema.json | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/hfx.schema.json b/hfx.schema.json
index b9dc3ff..1ae606b 100644
--- a/hfx.schema.json
+++ b/hfx.schema.json
@@ -270,7 +270,7 @@
         },
         "group": {
           "type": "string",
-          "description": "Groups such as NHP, DLA, FISH etc.."
+          "description": "Groups identified on the https://www.ebi.ac.uk/ipd/mhc/ and https://www.ebi.ac.uk/ipd/nhkir/ web pages."
         },
         "version": {
           "type": "string",

From d880d5c1bf2519081e904cb07c51bf10a8fe066b Mon Sep 17 00:00:00 2001
From: Pradeep Bashyal <pbashyal@nmdp.org>
Date: Mon, 27 Oct 2025 13:27:16 -0500
Subject: [PATCH 3/3] - Remove `group` from `nomenclature` in schema - Fix
 `frequencyDataLocation` inconsistency

---
 .gitignore                                      |  7 +++++++
 examples/csv-frequency/cau.hfx-metadata.json    |  3 +--
 examples/inline-frequency/cau.hfx-metadata.json |  3 +--
 hfx.schema.json                                 | 10 +++-------
 4 files changed, 12 insertions(+), 11 deletions(-)

diff --git a/.gitignore b/.gitignore
index e69de29..8bc945c 100644
--- a/.gitignore
+++ b/.gitignore
@@ -0,0 +1,7 @@
+.DS_Store
+
+.venv
+venv
+
+.idea
+
diff --git a/examples/csv-frequency/cau.hfx-metadata.json b/examples/csv-frequency/cau.hfx-metadata.json
index 5c3aa94..c5e67c2 100644
--- a/examples/csv-frequency/cau.hfx-metadata.json
+++ b/examples/csv-frequency/cau.hfx-metadata.json
@@ -48,7 +48,6 @@
     },
     "nomenclatureUsed": {
       "database": "IPD-IMGT/HLA",
-      "group": "",
       "version": "3.20.0"
     },
     "producer": {
@@ -60,7 +59,7 @@
         "year": "2007"
       }
     },
-    "frequencyLocation": "file://cau.csv",
+    "frequencyDataLocation": "file://cau.csv",
     "checkSum": "8e7bb58cff1a32c250898c13f2c354f4"
   }
 }
diff --git a/examples/inline-frequency/cau.hfx-metadata.json b/examples/inline-frequency/cau.hfx-metadata.json
index 2a2907c..2018fe8 100644
--- a/examples/inline-frequency/cau.hfx-metadata.json
+++ b/examples/inline-frequency/cau.hfx-metadata.json
@@ -48,7 +48,6 @@
     },
     "nomenclatureUsed": {
       "database": "IPD-IMGT/HLA",
-      "group": "",
       "version": "3.20.0"
     },
     "producer": {
@@ -60,7 +59,7 @@
         "year": "2007"
       }
     },
-    "frequencyLocation": "inline"
+    "frequencyDataLocation": "inline"
   },
   "frequencyData": [
     {
diff --git a/hfx.schema.json b/hfx.schema.json
index 1ae606b..963ced3 100644
--- a/hfx.schema.json
+++ b/hfx.schema.json
@@ -35,7 +35,7 @@
         "producer": {
           "$ref": "#/$defs/producer"
         },
-        "frequencyLocation": {
+        "frequencyDataLocation": {
           "$ref": "#/$defs/frequencyDataLocation"
         },
         "license": {
@@ -52,7 +52,7 @@
         "hfeMethod",
         "cohortDescription",
         "nomenclatureUsed",
-        "frequencyLocation"
+        "frequencyDataLocation"
       ],
       "additionalProperties": false
     },
@@ -163,7 +163,7 @@
       "properties": {
         "species": {
           "type": "string",
-          "description": "The species the Hf set is based on"
+          "description": "Species as defined in https://www.ebi.ac.uk/ena/ i.e. https://www.ebi.ac.uk/ena/browser/view/Taxon:9606 for 'human'"
         },
         "population": {
           "type": "array",
@@ -268,10 +268,6 @@
           ],
           "description": "IPD main groups"
         },
-        "group": {
-          "type": "string",
-          "description": "Groups identified on the https://www.ebi.ac.uk/ipd/mhc/ and https://www.ebi.ac.uk/ipd/nhkir/ web pages."
-        },
         "version": {
           "type": "string",
           "description": "Version of the IPD database"