debase 0.1.17__py3-none-any.whl → 0.1.18__py3-none-any.whl

debase/_version.py

@@ -1,3 +1,3 @@
 """Version information."""
 
-__version__ = "0.1.17"
+__version__ = "0.1.18"

debase/reaction_info_extractor.py

@@ -961,8 +961,9 @@ Ignore locations that contain data for other campaigns.
             LOGGER.info("Gemini Vision: extracting metrics for %d enzymes from %s…", len(enzyme_list), ref)
             tag = f"extract_metrics_batch_vision"
         else:
-            # Add enzyme names to prompt for batch extraction
-            prompt = campaign_context + PROMPT_EXTRACT_METRICS + f"\n\nExtract performance data for ALL these enzyme variants:\n{enzyme_names}\n\n=== CONTEXT ===\n" + snippet[:4000]
+            # Add enzyme names to prompt for batch extraction with explicit format requirement
+            format_example = '{"enzyme1": {"yield": "99.0%", "ttn": null, ...}, "enzyme2": {"yield": "85.0%", ...}}'
+            prompt = campaign_context + PROMPT_EXTRACT_METRICS + f"\n\nExtract performance data for ALL these enzyme variants:\n{enzyme_names}\n\nReturn a JSON object with enzyme names as keys, each containing the metrics.\nExample format: {format_example}\n\n=== CONTEXT ===\n" + snippet[:4000]
             LOGGER.info("Gemini: extracting metrics for %d enzymes from %s…", len(enzyme_list), ref)
             tag = f"extract_metrics_batch"
 

{debase-0.1.17.dist-info → debase-0.1.18.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: debase
-Version: 0.1.17
+Version: 0.1.18
 Summary: Enzyme lineage analysis and sequence extraction package
 Home-page: https://github.com/YuemingLong/DEBase
 Author: DEBase Team

{debase-0.1.17.dist-info → debase-0.1.18.dist-info}/RECORD

@@ -1,17 +1,17 @@
 debase/PIPELINE_FLOW.md,sha256=S4nQyZlX39-Bchw1gQWPK60sHiFpB1eWHqo5GR9oTY8,4741
 debase/__init__.py,sha256=YeKveGj_8fwuu5ozoK2mUU86so_FjiCwsvg1d_lYVZU,586
 debase/__main__.py,sha256=LbxYt2x9TG5Ced7LpzzX_8gkWyXeZSlVHzqHfqAiPwQ,160
-debase/_version.py,sha256=edeF0ciTSBytkIGNcNjx3UR4nAs3QzF_Lmmyr66k0Jc,50
+debase/_version.py,sha256=Qd1kKsssesKE5FvJnDdAuZsx_BrxTSJJyt68SK99D54,50
 debase/build_db.py,sha256=bW574GxsL1BJtDwM19urLbciPcejLzfraXZPpzm09FQ,7167
 debase/cleanup_sequence.py,sha256=QyhUqvTBVFTGM7ebAHmP3tif3Jq-8hvoLApYwAJtpH4,32702
 debase/enzyme_lineage_extractor.py,sha256=xbNKkIMRCM2dYHsX24vWX1EsQINaGSWBj-iTX10B8Mw,117057
 debase/lineage_format.py,sha256=IS9ig-Uv7KxtI9enZKM6YgQ7sitqwOo4cdXbOy38J3s,34232
-debase/reaction_info_extractor.py,sha256=NjOXZf22i3PvYpCgk9DCnswCbgmCQkj5V2-E21LEM6M,112876
+debase/reaction_info_extractor.py,sha256=W9CS0puFTdhJ_T2Fpy931EgnjOCsHHjbtU6RdnzDlhw,113140
 debase/substrate_scope_extractor.py,sha256=9XDF-DxOqB63AwaVceAMvg7BcjoTQXE_pG2c_seM_DA,100698
 debase/wrapper.py,sha256=V9bs8ZiyCpJHMM5VuN74kiKdkQRVU6vyvLKCrO1BUB8,20890
-debase-0.1.17.dist-info/licenses/LICENSE,sha256=5sk9_tcNmr1r2iMIUAiioBo7wo38u8BrPlO7f0seqgE,1075
-debase-0.1.17.dist-info/METADATA,sha256=uCGXpNG7dIVZtpywd8V7kBcXuWHPyTjhJmH0mWKD7Ew,10790
-debase-0.1.17.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
-debase-0.1.17.dist-info/entry_points.txt,sha256=hUcxA1b4xORu-HHBFTe9u2KTdbxPzt0dwz95_6JNe9M,48
-debase-0.1.17.dist-info/top_level.txt,sha256=2BUeq-4kmQr0Rhl06AnRzmmZNs8WzBRK9OcJehkcdk8,7
-debase-0.1.17.dist-info/RECORD,,
+debase-0.1.18.dist-info/licenses/LICENSE,sha256=5sk9_tcNmr1r2iMIUAiioBo7wo38u8BrPlO7f0seqgE,1075
+debase-0.1.18.dist-info/METADATA,sha256=XvSrveJ0Y40c53JYUfiveaQNJ3qoEkxaQ61n3_--1cQ,10790
+debase-0.1.18.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
+debase-0.1.18.dist-info/entry_points.txt,sha256=hUcxA1b4xORu-HHBFTe9u2KTdbxPzt0dwz95_6JNe9M,48
+debase-0.1.18.dist-info/top_level.txt,sha256=2BUeq-4kmQr0Rhl06AnRzmmZNs8WzBRK9OcJehkcdk8,7
+debase-0.1.18.dist-info/RECORD,,