From 1480f52b102e9cdfb638fbbf3b64aeeade75dac3 Mon Sep 17 00:00:00 2001
From: Siddhant Chaudhary <urssidd@gmail.com>
Date: Tue, 1 Oct 2024 23:30:10 +0530
Subject: [PATCH] Adding python colbert eval script for julia documentation
 index.

---
 examples/AIHelpMe/juliadocsindex.py | 100 ++++++++++++++++++++++++++++
 1 file changed, 100 insertions(+)
 create mode 100644 examples/AIHelpMe/juliadocsindex.py

diff --git a/examples/AIHelpMe/juliadocsindex.py b/examples/AIHelpMe/juliadocsindex.py
new file mode 100644
index 0000000..a2b23b2
--- /dev/null
+++ b/examples/AIHelpMe/juliadocsindex.py
@@ -0,0 +1,100 @@
+import time
+
+from colbert.infra import Run, RunConfig, ColBERTConfig
+from colbert.data import Collection
+from colbert import Indexer, Searcher
+
+# creating the collection
+doc_passages = []
+doc_sources = []
+
+import h5py
+
+filenames = [
+    "genie__v20240818__textembedding3large-1024-Bool__v1.0.hdf5",
+    "JuliaData-text-embedding-3-large-1-Bool__v1.0.hdf5",
+    "julialang__v20240819__textembedding3large-1024-Bool__v1.0.hdf5",
+    "Makie-text-embedding-3-large-1-Bool__v1.0.hdf5",
+    "pack.hdf5",
+    "Plots-text-embedding-3-large-1-Bool__v1.0.hdf5",
+    "sciml__v20240716__textembedding3large-1024-Bool__v1.0.hdf5",
+    "tidier__v20240716__textembedding3large-1024-Bool__v1.0.hdf5",
+]
+for filename in filenames:
+    with h5py.File(filename, "r") as file:
+        doc_passages += list(file["chunks"])
+        doc_sources += list(file["sources"])
+
+# convert to string
+for idx in range(len(doc_passages)):
+    doc_passages[idx] = doc_passages[idx].decode()
+    doc_sources[idx] = doc_sources[idx].decode()
+
+collection = Collection(data=doc_passages)
+f"Loaded {len(collection):,} passages"
+print(collection[89852])
+
+# build the index
+nbits = 2  # encode each dimension with 2 bits
+doc_maxlen = 300  # truncate passages at 300 tokens
+
+checkpoint = "/home/chaudhary/models/colbertv2.0"
+index_name = f"juliadocsindex_python"
+
+start = time.process_time()
+with Run().context(
+    RunConfig(nranks=1, experiment="notebook")
+):  # nranks specifies the number of GPUs to use.
+    config = ColBERTConfig(doc_maxlen=doc_maxlen, nbits=nbits)
+
+    indexer = Indexer(checkpoint=checkpoint, config=config)
+    indexer.index(name=index_name, collection=collection, overwrite=True)
+time_elapsed = time.process_time() - start
+# about 12 minutes; it's much faster
+
+# some sample search queries
+with Run().context(RunConfig(experiment="notebook")):
+    searcher = Searcher(index=index_name, collection=collection)
+query = "How can you construct an uninitialized CategoricalArray with specific levels and dimensions?"
+results = searcher.search(query, k=10)
+for passage_id, passage_rank, passage_score in zip(*results):
+    print(
+        f"\t [{passage_rank}] \t\t {passage_score:.1f} \t\t {searcher.collection[passage_id]}"
+    )
+
+# evaluation
+import json
+import pylcs
+
+
+def distance_longest_common_subsequence(input1, input2):
+    if len(input1) == 0 or len(input2) == 0:
+        return 1.0
+    similarity = pylcs.lcs(input1, input2)
+    shortest_length = min(len(input1), len(input2))
+    return 1.0 - similarity / shortest_length
+
+
+def distance_longest_common_subsequence_multiple(input, inputs):
+    return [
+        distance_longest_common_subsequence(input, input2) for input2 in inputs
+    ]
+
+
+with open("qa_evals.json", "r") as file:
+    eval_qa = json.load(file)
+k = 5
+num_hits = 0
+for query in eval_qa:
+    pids, _, scores = searcher.search(query["question"], k=k)
+    if (
+        min(
+            distance_longest_common_subsequence_multiple(
+                query["context"], [doc_passages[pid] for pid in pids]
+            )
+        )
+        < 0.33
+    ):
+        num_hits += 1
+print("Number of hits: ", num_hits / len(eval_qa))
+## Number of hits:  0.8676470588235294