Add a chr alias for upper & lower case versions of chromosome names to make search case insensitive, to an extent. Mixed case search terms must still be an exact match to the reference. Fixes #1904

Author: jrobinso

js/genome/chromAliasDefaults.js

@@ -126,6 +126,9 @@ class ChromAliasDefaults {
                     this.aliasRecordCache.set(a, rec)
                 }
             }
+            this.aliasRecordCache.set(name.toLowerCase(), rec)
+            this.aliasRecordCache.set(name.toUpperCase(), rec)
+
         }
     }
 

js/genome/chromAliasFile.js

@@ -78,6 +78,9 @@ class ChromAliasFile {
                     aliasRecord[key] = tokens[i]
                     this.aliasRecordCache.set(tokens[i], aliasRecord)
                 }
+
+                this.aliasRecordCache.set(chr.toLowerCase(), aliasRecord)
+                this.aliasRecordCache.set(chr.toUpperCase(), aliasRecord)
             }
         }
     }