Sync from GitHub: 32807617773d0b0764947d4d4aa06376b7385c12

app.py

@@ -352,12 +352,15 @@ def _hardened_parse(raw_output: str) -> list:
 # portion, because small LLMs echo instruction vocabulary back as
 # output content.
 _EXTRACTOR_PROMPT_TEMPLATE = (
-    "Read the following text and extract the distinct subject-matter "
-    "entities, topics, and domain vocabulary mentioned. Output as a "
-    "comma-separated enumeration. Each item should be 1-3 words. "
-    "No sentences, no explanations, no repetition.\n\n"
+    "Read the following text. Extract the specific mechanisms, "
+    "operations, and relationships it establishes — the things the "
+    "text says happen, connect, or depend on each other. Prefer "
+    "specific over general: 'prime factorization' not 'number theory', "
+    "'membrane depolarization' not 'biology'. Output as a comma-"
+    "separated enumeration. Each item 1-4 words. No sentences, no "
+    "explanations, no repetition.\n\n"
     "Text: {text}\n\n"
-    "Enumeration:"
+    "Mechanisms:"
 )
 
 

nuwave/concept_helper.py

@@ -190,7 +190,13 @@ class ConceptWorker:
                 self._organism._embeddings[tree_id] = tree_emb
                 self._organism._node_content[tree_id] = concept
 
-                # Hebbian forest↔tree link via co-stimulation.
+                # Register tree in the amplitude field so it participates
+                # in the same decay/boost dynamics as forest nodes.
+                # Without this the tree is invisible to the step() decay
+                # loop and jumps discontinuously from implicit 0.5 → 0.9
+                # on its first fire. 0.5 initial < forest's 1.0 because
+                # a tree is an extracted fragment with less context.
+                self._organism._amplitudes[tree_id] = 0.5
                 # STDP in the next step() will reinforce whichever
                 # direction co-fires more reliably.
                 try: