update: schemas

bigbio · Sep 11, 2024 · c48766b · c48766b
1 parent 42b6825
commit c48766b
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Showing 3 changed files with 4 additions and 5 deletions.
diff --git a/docs/feature.avsc b/docs/feature.avsc
@@ -15,7 +15,6 @@
 		{"name": "additional_scores", "type": {"type": "array","items": { "type": "struct", "field": { "name": "string", "value": "double"}}} , 
 		"doc": "List of structures, each structure contains two fields: name and value."},
 
-
 		{"name": "pg_accessions", "type": ["null", {"type": "array","items": "string"}], "doc": "Protein group accessions of all the proteins that the peptide maps to"},
         {"name": "pg_positions", "type": ["null", {"type": "array","items": "string"}], "doc": "Protein start and end positions written as start_post:end_post"},
         {"name": "unique", "type": ["null", "int"], "doc": "Unique peptide indicator, if the peptide maps to a single protein, the value is 1, otherwise 0"},

diff --git a/docs/peptide.avsc b/docs/peptide.avsc
@@ -12,8 +12,8 @@
 
 		{"name": "is_decoy", "type": "int", "doc": "Decoy indicator, 1 if the PSM is a decoy, 0 target"},
 		{"name": "calculated_mz", "type": "double", "doc": "Theoretical peptide mass-to-charge ratio based on identified sequence and modifications"},
-		{"name": "additional_scores", "type": {"type": "array", "items": "string"}, "doc": "List of search engine scores as key-value pairs, read the specification for more details"},
-
+		{"name": "additional_scores", "type": {"type": "array","items": { "type": "struct", "field": { "name": "string", "value": "double"}}} , 
+		"doc": "List of structures, each structure contains two fields: name and value."},
 
 		{"name": "pg_accessions", "type": ["null",{"type": "array","items": "string"}], "doc": "Protein group accessions of all the proteins that the peptide maps to"},
         {"name": "pg_positions", "type": ["null",{"type": "array","items": "string"}], "doc": "Protein start and end positions written as start_post:end_post"},

diff --git a/docs/psm.avsc b/docs/psm.avsc
@@ -12,8 +12,8 @@
 
 		{"name": "is_decoy", "type": "int", "doc": "Decoy indicator, 1 if the PSM is a decoy, 0 target"},
 		{"name": "calculated_mz", "type": "double", "doc": "Theoretical peptide mass-to-charge ratio based on identified sequence and modifications"},
-		{"name": "additional_scores", "type": {"type": "array", "items": "string"}, "doc": "List of search engine scores as key-value pairs, read the specification for more details"},
-
+		{"name": "additional_scores", "type": {"type": "array","items": { "type": "struct", "field": { "name": "string", "value": "double"}}} , 
+		"doc": "List of structures, each structure contains two fields: name and value."},
 
 		{"name": "pg_accessions", "type": ["null",{"type": "array","items": "string"}], "doc": "Protein group accessions of all the proteins that the peptide maps to"},
     {"name": "pg_positions", "type": ["null",{"type": "array","items": "string"}], "doc": "Protein start and end positions written as start_post:end_post"},