small changes

parser/MzIdParser.py

@@ -767,7 +767,10 @@ def write_new_upload(self):
             table = 'upload'
 
             response = self.writer.write_new_upload(table, upload_data)
-            self.writer.upload_id =int(response)
+            if response:
+                self.writer.upload_id =int(response)
+            else:
+                raise Exception("Response is not available to create a upload ID")
         except SQLAlchemyError as e:
             print(f"Error during database insert: {e}")
 

parser/api_writer.py

@@ -1,5 +1,6 @@
 import traceback
 import requests
+import json
 
 from config.config_parser import get_api_configs
 from parser.writer import Writer
@@ -27,6 +28,9 @@ def write_data(self, table, data):
                 "table": table,
                 "data": data,
             }
+            # Calculate the size of the payload
+            payload_size = len(json.dumps(payload))
+            print("Payload Size:", payload_size)  # Print the payload size
             response = requests.post(url=API_ENDPOINT, headers=headers, json=payload)
             response.raise_for_status()
 
@@ -57,6 +61,9 @@ def write_new_upload(self, table, data):
                 "table": table,
                 "data": data,
             }
+            # Calculate the size of the payload
+            payload_size = len(json.dumps(payload))
+            print("write_new_upload Payload Size:", payload_size)  # Print the payload size
             response = requests.post(url=API_ENDPOINT, headers=headers, json=payload)
             response.raise_for_status()
 
@@ -90,6 +97,9 @@ def write_mzid_info(self, analysis_software_list, spectra_formats,
                 "samples": samples,
                 "bib": bib,
             }
+            # Calculate the size of the payload
+            payload_size = len(json.dumps(payload))
+            print("write_mzid_info Payload Size:", payload_size)  # Print the payload size
             response = requests.post(url=API_ENDPOINT, headers=headers, json=payload)
             response.raise_for_status()
             result = response.json()

setup.py

@@ -24,7 +24,7 @@ def get_version(rel_path):
 
 setup(
     name="xi-mzidentml-converter",
-    version="0.1.17",
+    version="0.1.19",
     description="xi-mzidentml-converter uses pyteomics (https://pyteomics.readthedocs.io/en/latest/index.html) to parse mzIdentML files (v1.2.0) and extract crosslink information. Results are written to a relational database (PostgreSQL or SQLite) using sqlalchemy.",
     long_description_content_type="text/markdown",
     long_description=long_description,