Tweak parameters in regression yaml (#2581)

+ simplified parameters in cases where there are default (for BEIR) + moved "threads" parameter up closer to beginning of command (for indexing, all regressions)
castorini · Aug 31, 2024 · 9744463 · 9744463
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diff --git a/docs/regressions/regressions-backgroundlinking18.md b/docs/regressions/regressions-backgroundlinking18.md
@@ -18,11 +18,12 @@ Typical indexing command:
 
 ```
 bin/run.sh io.anserini.index.IndexCollection \
+  -threads 1 \
   -collection WashingtonPostCollection \
   -input /path/to/wapo.v2 \
   -generator WashingtonPostGenerator \
   -index indexes/lucene-index.wapo.v2/ \
-  -threads 1 -storePositions -storeDocvectors -storeRaw \
+  -storePositions -storeDocvectors -storeRaw \
   >& logs/log.wapo.v2 &
 ```
 

diff --git a/docs/regressions/regressions-backgroundlinking19.md b/docs/regressions/regressions-backgroundlinking19.md
@@ -18,11 +18,12 @@ Typical indexing command:
 
 ```
 bin/run.sh io.anserini.index.IndexCollection \
+  -threads 1 \
   -collection WashingtonPostCollection \
   -input /path/to/wapo.v2 \
   -generator WashingtonPostGenerator \
   -index indexes/lucene-index.wapo.v2/ \
-  -threads 1 -storePositions -storeDocvectors -storeRaw \
+  -storePositions -storeDocvectors -storeRaw \
   >& logs/log.wapo.v2 &
 ```
 

diff --git a/docs/regressions/regressions-backgroundlinking20.md b/docs/regressions/regressions-backgroundlinking20.md
@@ -18,11 +18,12 @@ Typical indexing command:
 
 ```
 bin/run.sh io.anserini.index.IndexCollection \
+  -threads 1 \
   -collection WashingtonPostCollection \
   -input /path/to/wapo.v3 \
   -generator WashingtonPostGenerator \
   -index indexes/lucene-index.wapo.v3/ \
-  -threads 1 -storePositions -storeDocvectors -storeRaw \
+  -storePositions -storeDocvectors -storeRaw \
   >& logs/log.wapo.v3 &
 ```
 

diff --git a/...egressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.flat-int8.cached.md b/...egressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.flat-int8.cached.md
@@ -33,11 +33,12 @@ Sample indexing command, building quantized flat indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexFlatDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-flat-int8.beir-v1.0.0-arguana.bge-base-en-v1.5/ \
-  -threads 16 -quantize.int8 \
+  -quantize.int8 \
   >& logs/log.beir-v1.0.0-arguana.bge-base-en-v1.5 &
 ```
 
@@ -55,7 +56,7 @@ bin/run.sh io.anserini.search.SearchFlatDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-arguana.test.bge-base-en-v1.5.jsonl.gz \
   -topicReader JsonStringVector \
   -output runs/run.beir-v1.0.0-arguana.bge-base-en-v1.5.bge-flat-int8-cached.topics.beir-v1.0.0-arguana.test.bge-base-en-v1.5.jsonl.txt \
-  -generator VectorQueryGenerator -topicField vector -removeQuery -threads 16 -hits 1000 &
+  -hits 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/.../regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.flat-int8.onnx.md b/.../regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.flat-int8.onnx.md
@@ -33,11 +33,12 @@ Sample indexing command, building quantized flat indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexFlatDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-flat-int8.beir-v1.0.0-arguana.bge-base-en-v1.5/ \
-  -threads 16 -quantize.int8 \
+  -quantize.int8 \
   >& logs/log.beir-v1.0.0-arguana.bge-base-en-v1.5 &
 ```
 
@@ -55,7 +56,7 @@ bin/run.sh io.anserini.search.SearchFlatDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-arguana.test.tsv.gz \
   -topicReader TsvString \
   -output runs/run.beir-v1.0.0-arguana.bge-base-en-v1.5.bge-flat-int8-onnx.topics.beir-v1.0.0-arguana.test.txt \
-  -generator VectorQueryGenerator -topicField vector -removeQuery -threads 16 -hits 1000 -encoder BgeBaseEn15 &
+  -encoder BgeBaseEn15 -hits 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/docs/regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.flat.cached.md b/docs/regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.flat.cached.md
@@ -33,11 +33,11 @@ Sample indexing command, building flat indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexFlatDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-flat.beir-v1.0.0-arguana.bge-base-en-v1.5/ \
-  -threads 16  \
   >& logs/log.beir-v1.0.0-arguana.bge-base-en-v1.5 &
 ```
 
@@ -55,7 +55,7 @@ bin/run.sh io.anserini.search.SearchFlatDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-arguana.test.bge-base-en-v1.5.jsonl.gz \
   -topicReader JsonStringVector \
   -output runs/run.beir-v1.0.0-arguana.bge-base-en-v1.5.bge-flat-cached.topics.beir-v1.0.0-arguana.test.bge-base-en-v1.5.jsonl.txt \
-  -generator VectorQueryGenerator -topicField vector -removeQuery -threads 16 -hits 1000 &
+  -hits 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/docs/regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.flat.onnx.md b/docs/regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.flat.onnx.md
@@ -33,11 +33,11 @@ Sample indexing command, building flat indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexFlatDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-flat.beir-v1.0.0-arguana.bge-base-en-v1.5/ \
-  -threads 16  \
   >& logs/log.beir-v1.0.0-arguana.bge-base-en-v1.5 &
 ```
 
@@ -55,7 +55,7 @@ bin/run.sh io.anserini.search.SearchFlatDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-arguana.test.tsv.gz \
   -topicReader TsvString \
   -output runs/run.beir-v1.0.0-arguana.bge-base-en-v1.5.bge-flat-onnx.topics.beir-v1.0.0-arguana.test.txt \
-  -generator VectorQueryGenerator -topicField vector -removeQuery -threads 16 -hits 1000 -encoder BgeBaseEn15 &
+  -encoder BgeBaseEn15 -hits 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/...egressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.hnsw-int8.cached.md b/...egressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.hnsw-int8.cached.md
@@ -33,11 +33,12 @@ Sample indexing command, building quantized HNSW indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexHnswDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-hnsw-int8.beir-v1.0.0-arguana.bge-base-en-v1.5/ \
-  -threads 16 -M 16 -efC 100 -quantize.int8 \
+  -M 16 -efC 100 -quantize.int8 \
   >& logs/log.beir-v1.0.0-arguana.bge-base-en-v1.5 &
 ```
 
@@ -57,7 +58,7 @@ bin/run.sh io.anserini.search.SearchHnswDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-arguana.test.bge-base-en-v1.5.jsonl.gz \
   -topicReader JsonStringVector \
   -output runs/run.beir-v1.0.0-arguana.bge-base-en-v1.5.bge-hnsw-int8-cached.topics.beir-v1.0.0-arguana.test.bge-base-en-v1.5.jsonl.txt \
-  -generator VectorQueryGenerator -topicField vector -removeQuery -threads 16 -hits 1000 -efSearch 1000 &
+  -hits 1000 -efSearch 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/.../regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.hnsw-int8.onnx.md b/.../regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.hnsw-int8.onnx.md
@@ -33,11 +33,12 @@ Sample indexing command, building quantized HNSW indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexHnswDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-hnsw-int8.beir-v1.0.0-arguana.bge-base-en-v1.5/ \
-  -threads 16 -M 16 -efC 100 -memoryBuffer 65536 -noMerge -quantize.int8 \
+  -M 16 -efC 100 -memoryBuffer 65536 -noMerge -quantize.int8 \
   >& logs/log.beir-v1.0.0-arguana.bge-base-en-v1.5 &
 ```
 
@@ -57,7 +58,7 @@ bin/run.sh io.anserini.search.SearchHnswDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-arguana.test.tsv.gz \
   -topicReader TsvString \
   -output runs/run.beir-v1.0.0-arguana.bge-base-en-v1.5.bge-hnsw-int8-onnx.topics.beir-v1.0.0-arguana.test.txt \
-  -generator VectorQueryGenerator -topicField title -removeQuery -threads 16 -hits 1000 -efSearch 1000 -encoder BgeBaseEn15 &
+  -encoder BgeBaseEn15 -hits 1000 -efSearch 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/docs/regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.hnsw.cached.md b/docs/regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.hnsw.cached.md
@@ -33,11 +33,12 @@ Sample indexing command, building HNSW indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexHnswDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-hnsw.beir-v1.0.0-arguana.bge-base-en-v1.5/ \
-  -threads 16 -M 16 -efC 100 \
+  -M 16 -efC 100 \
   >& logs/log.beir-v1.0.0-arguana.bge-base-en-v1.5 &
 ```
 
@@ -57,7 +58,7 @@ bin/run.sh io.anserini.search.SearchHnswDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-arguana.test.bge-base-en-v1.5.jsonl.gz \
   -topicReader JsonStringVector \
   -output runs/run.beir-v1.0.0-arguana.bge-base-en-v1.5.bge-hnsw-cached.topics.beir-v1.0.0-arguana.test.bge-base-en-v1.5.jsonl.txt \
-  -generator VectorQueryGenerator -topicField vector -removeQuery -threads 16 -hits 1000 -efSearch 1000 &
+  -hits 1000 -efSearch 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/docs/regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.hnsw.onnx.md b/docs/regressions/regressions-beir-v1.0.0-arguana.bge-base-en-v1.5.hnsw.onnx.md
@@ -33,11 +33,12 @@ Sample indexing command, building HNSW indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexHnswDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-hnsw.beir-v1.0.0-arguana.bge-base-en-v1.5/ \
-  -threads 16 -M 16 -efC 100 -memoryBuffer 65536 -noMerge \
+  -M 16 -efC 100 -memoryBuffer 65536 -noMerge \
   >& logs/log.beir-v1.0.0-arguana.bge-base-en-v1.5 &
 ```
 
@@ -57,7 +58,7 @@ bin/run.sh io.anserini.search.SearchHnswDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-arguana.test.tsv.gz \
   -topicReader TsvString \
   -output runs/run.beir-v1.0.0-arguana.bge-base-en-v1.5.bge-hnsw-onnx.topics.beir-v1.0.0-arguana.test.txt \
-  -generator VectorQueryGenerator -topicField title -removeQuery -threads 16 -hits 1000 -efSearch 1000 -encoder BgeBaseEn15 &
+  -encoder BgeBaseEn15 -hits 1000 -efSearch 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/docs/regressions/regressions-beir-v1.0.0-arguana.flat-wp.md b/docs/regressions/regressions-beir-v1.0.0-arguana.flat-wp.md
@@ -29,11 +29,12 @@ Typical indexing command:
 
 ```
 bin/run.sh io.anserini.index.IndexCollection \
+  -threads 1 \
   -collection BeirFlatCollection \
   -input /path/to/beir-v1.0.0-arguana.flat-wp \
   -generator DefaultLuceneDocumentGenerator \
   -index indexes/lucene-inverted.beir-v1.0.0-arguana.flat-wp/ \
-  -threads 1 -storePositions -storeDocvectors -storeRaw -pretokenized \
+  -storePositions -storeDocvectors -storeRaw -pretokenized \
   >& logs/log.beir-v1.0.0-arguana.flat-wp &
 ```
 

diff --git a/docs/regressions/regressions-beir-v1.0.0-arguana.flat.md b/docs/regressions/regressions-beir-v1.0.0-arguana.flat.md
@@ -28,11 +28,12 @@ Typical indexing command:
 
 ```
 bin/run.sh io.anserini.index.IndexCollection \
+  -threads 1 \
   -collection BeirFlatCollection \
   -input /path/to/beir-v1.0.0-arguana.flat \
   -generator DefaultLuceneDocumentGenerator \
   -index indexes/lucene-inverted.beir-v1.0.0-arguana.flat/ \
-  -threads 1 -storePositions -storeDocvectors -storeRaw \
+  -storePositions -storeDocvectors -storeRaw \
   >& logs/log.beir-v1.0.0-arguana.flat &
 ```
 

diff --git a/docs/regressions/regressions-beir-v1.0.0-arguana.multifield.md b/docs/regressions/regressions-beir-v1.0.0-arguana.multifield.md
@@ -29,11 +29,12 @@ Typical indexing command:
 
 ```
 bin/run.sh io.anserini.index.IndexCollection \
+  -threads 1 \
   -collection BeirMultifieldCollection \
   -input /path/to/beir-v1.0.0-arguana.multifield \
   -generator DefaultLuceneDocumentGenerator \
   -index indexes/lucene-inverted.beir-v1.0.0-arguana.multifield/ \
-  -threads 1 -storePositions -storeDocvectors -storeRaw -fields title \
+  -storePositions -storeDocvectors -storeRaw -fields title \
   >& logs/log.beir-v1.0.0-arguana.multifield &
 ```
 

diff --git a/docs/regressions/regressions-beir-v1.0.0-arguana.splade-pp-ed.cached.md b/docs/regressions/regressions-beir-v1.0.0-arguana.splade-pp-ed.cached.md
@@ -35,11 +35,12 @@ Sample indexing command:
 
 ```
 bin/run.sh io.anserini.index.IndexCollection \
+  -threads 16 \
   -collection JsonVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.splade-pp-ed \
   -generator DefaultLuceneDocumentGenerator \
   -index indexes/lucene-inverted.beir-v1.0.0-arguana.splade-pp-ed/ \
-  -threads 16 -impact -pretokenized \
+  -impact -pretokenized \
   >& logs/log.beir-v1.0.0-arguana.splade-pp-ed &
 ```
 

diff --git a/docs/regressions/regressions-beir-v1.0.0-arguana.splade-pp-ed.onnx.md b/docs/regressions/regressions-beir-v1.0.0-arguana.splade-pp-ed.onnx.md
@@ -35,11 +35,12 @@ Sample indexing command:
 
 ```
 bin/run.sh io.anserini.index.IndexCollection \
+  -threads 16 \
   -collection JsonVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.splade-pp-ed \
   -generator DefaultLuceneDocumentGenerator \
   -index indexes/lucene-inverted.beir-v1.0.0-arguana.splade-pp-ed/ \
-  -threads 16 -impact -pretokenized \
+  -impact -pretokenized \
   >& logs/log.beir-v1.0.0-arguana.splade-pp-ed &
 ```
 

diff --git a/docs/regressions/regressions-beir-v1.0.0-arguana.unicoil-noexp.cached.md b/docs/regressions/regressions-beir-v1.0.0-arguana.unicoil-noexp.cached.md
@@ -34,11 +34,12 @@ Typical indexing command:
 
 ```
 bin/run.sh io.anserini.index.IndexCollection \
+  -threads 16 \
   -collection JsonVectorCollection \
   -input /path/to/beir-v1.0.0-arguana.unicoil-noexp \
   -generator DefaultLuceneDocumentGenerator \
   -index indexes/lucene-inverted.beir-v1.0.0-arguana.unicoil-noexp/ \
-  -threads 16 -impact -pretokenized \
+  -impact -pretokenized \
   >& logs/log.beir-v1.0.0-arguana.unicoil-noexp &
 ```
 

diff --git a/...regressions/regressions-beir-v1.0.0-bioasq.bge-base-en-v1.5.flat-int8.cached.md b/...regressions/regressions-beir-v1.0.0-bioasq.bge-base-en-v1.5.flat-int8.cached.md
@@ -33,11 +33,12 @@ Sample indexing command, building quantized flat indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexFlatDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-bioasq.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-flat-int8.beir-v1.0.0-bioasq.bge-base-en-v1.5/ \
-  -threads 16 -quantize.int8 \
+  -quantize.int8 \
   >& logs/log.beir-v1.0.0-bioasq.bge-base-en-v1.5 &
 ```
 
@@ -55,7 +56,7 @@ bin/run.sh io.anserini.search.SearchFlatDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-bioasq.test.bge-base-en-v1.5.jsonl.gz \
   -topicReader JsonStringVector \
   -output runs/run.beir-v1.0.0-bioasq.bge-base-en-v1.5.bge-flat-int8-cached.topics.beir-v1.0.0-bioasq.test.bge-base-en-v1.5.jsonl.txt \
-  -generator VectorQueryGenerator -topicField vector -removeQuery -threads 16 -hits 1000 &
+  -hits 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/docs/regressions/regressions-beir-v1.0.0-bioasq.bge-base-en-v1.5.flat-int8.onnx.md b/docs/regressions/regressions-beir-v1.0.0-bioasq.bge-base-en-v1.5.flat-int8.onnx.md
@@ -33,11 +33,12 @@ Sample indexing command, building quantized flat indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexFlatDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-bioasq.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-flat-int8.beir-v1.0.0-bioasq.bge-base-en-v1.5/ \
-  -threads 16 -quantize.int8 \
+  -quantize.int8 \
   >& logs/log.beir-v1.0.0-bioasq.bge-base-en-v1.5 &
 ```
 
@@ -55,7 +56,7 @@ bin/run.sh io.anserini.search.SearchFlatDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-bioasq.test.tsv.gz \
   -topicReader TsvString \
   -output runs/run.beir-v1.0.0-bioasq.bge-base-en-v1.5.bge-flat-int8-onnx.topics.beir-v1.0.0-bioasq.test.txt \
-  -generator VectorQueryGenerator -topicField vector -removeQuery -threads 16 -hits 1000 -encoder BgeBaseEn15 &
+  -encoder BgeBaseEn15 -hits 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/docs/regressions/regressions-beir-v1.0.0-bioasq.bge-base-en-v1.5.flat.cached.md b/docs/regressions/regressions-beir-v1.0.0-bioasq.bge-base-en-v1.5.flat.cached.md
@@ -33,11 +33,11 @@ Sample indexing command, building flat indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexFlatDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-bioasq.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-flat.beir-v1.0.0-bioasq.bge-base-en-v1.5/ \
-  -threads 16  \
   >& logs/log.beir-v1.0.0-bioasq.bge-base-en-v1.5 &
 ```
 
@@ -55,7 +55,7 @@ bin/run.sh io.anserini.search.SearchFlatDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-bioasq.test.bge-base-en-v1.5.jsonl.gz \
   -topicReader JsonStringVector \
   -output runs/run.beir-v1.0.0-bioasq.bge-base-en-v1.5.bge-flat-cached.topics.beir-v1.0.0-bioasq.test.bge-base-en-v1.5.jsonl.txt \
-  -generator VectorQueryGenerator -topicField vector -removeQuery -threads 16 -hits 1000 &
+  -hits 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`:

diff --git a/docs/regressions/regressions-beir-v1.0.0-bioasq.bge-base-en-v1.5.flat.onnx.md b/docs/regressions/regressions-beir-v1.0.0-bioasq.bge-base-en-v1.5.flat.onnx.md
@@ -33,11 +33,11 @@ Sample indexing command, building flat indexes:
 
 ```
 bin/run.sh io.anserini.index.IndexFlatDenseVectors \
+  -threads 16 \
   -collection JsonDenseVectorCollection \
   -input /path/to/beir-v1.0.0-bioasq.bge-base-en-v1.5 \
   -generator DenseVectorDocumentGenerator \
   -index indexes/lucene-flat.beir-v1.0.0-bioasq.bge-base-en-v1.5/ \
-  -threads 16  \
   >& logs/log.beir-v1.0.0-bioasq.bge-base-en-v1.5 &
 ```
 
@@ -55,7 +55,7 @@ bin/run.sh io.anserini.search.SearchFlatDenseVectors \
   -topics tools/topics-and-qrels/topics.beir-v1.0.0-bioasq.test.tsv.gz \
   -topicReader TsvString \
   -output runs/run.beir-v1.0.0-bioasq.bge-base-en-v1.5.bge-flat-onnx.topics.beir-v1.0.0-bioasq.test.txt \
-  -generator VectorQueryGenerator -topicField vector -removeQuery -threads 16 -hits 1000 -encoder BgeBaseEn15 &
+  -encoder BgeBaseEn15 -hits 1000 -removeQuery -threads 16 &
 ```
 
 Evaluation can be performed using `trec_eval`: