Merge pull request #32 from openworm/development

Docs update & added qwen

Author: pgleeson

corpus/papers/test/BoyleBerriCohen2012.json

@@ -268,6 +268,7 @@ def process_query(query, model, verbose=False):
             "What are the main types of cell in the C. elegans pharynx?",
             "Give me 3 facts about the coelomocyte system in C. elegans",
             "Tell me about the neurotransmitter betaine in C. elegans",
+            "Tell me about the different locomotory gaits of C. elegans",
         ]
 
         print_("Processing %i queries" % len(queries))

corpus/papers/test/PrimerOnCElegans.pdf.json

@@ -87,6 +87,10 @@ def convert_to_json(paper_ref, paper_info, output_dir):
             "corpus/papers/test/Wang2024_NeurotransmitterAtlas.pdf.json",
             "https://elifesciences.org/articles/95402",
         ],
+        "BoyleBerriCohen2012": [
+            "corpus/papers/test/BoyleBerriCohen2012.json",
+            "https://www.frontiersin.org/journals/computational-neuroscience/articles/10.3389/fncom.2012.00010/full",
+        ],
     }
 
     # Loop through papers and process markdown sections

corpus/papers/test/SinhaEtAl2025.pdf.json

@@ -50,8 +50,10 @@
 LLM_CMD_LINE_ARGS["-ge3"] = LLM_OLLAMA_GEMMA3
 LLM_OLLAMA_DEEPSEEK = "Ollama:deepseek-r1:7b"
 LLM_CMD_LINE_ARGS["-o-dsr1"] = LLM_OLLAMA_DEEPSEEK
-LLM_OLLAMA_QWEN = "Ollama:qwen:4b"
-LLM_CMD_LINE_ARGS["-qw"] = LLM_OLLAMA_QWEN
+
+LLM_OLLAMA_QWEN = "Ollama:qwen3:1.7b"
+LLM_CMD_LINE_ARGS["-o-qw"] = LLM_OLLAMA_QWEN
+
 LLM_OLLAMA_CODELLAMA = "Ollama:codellama:latest"
 LLM_OLLAMA_FALCON2 = "Ollama:falcon2:latest"
 LLM_OLLAMA_FALCON2 = "Ollama:falcon2:latest"