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1
+ ---
2
+ language: []
3
+ library_name: sentence-transformers
4
+ tags:
5
+ - sentence-transformers
6
+ - sentence-similarity
7
+ - feature-extraction
8
+ - generated_from_trainer
9
+ - dataset_size:89218
10
+ - loss:MultipleNegativesRankingLoss
11
+ base_model: sentence-transformers/multi-qa-mpnet-base-dot-v1
12
+ datasets: []
13
+ metrics:
14
+ - cosine_accuracy@1
15
+ - cosine_accuracy@3
16
+ - cosine_accuracy@5
17
+ - cosine_accuracy@10
18
+ - cosine_precision@1
19
+ - cosine_precision@3
20
+ - cosine_precision@5
21
+ - cosine_precision@10
22
+ - cosine_recall@1
23
+ - cosine_recall@3
24
+ - cosine_recall@5
25
+ - cosine_recall@10
26
+ - cosine_ndcg@10
27
+ - cosine_mrr@10
28
+ - cosine_map@100
29
+ - dot_accuracy@1
30
+ - dot_accuracy@3
31
+ - dot_accuracy@5
32
+ - dot_accuracy@10
33
+ - dot_precision@1
34
+ - dot_precision@3
35
+ - dot_precision@5
36
+ - dot_precision@10
37
+ - dot_recall@1
38
+ - dot_recall@3
39
+ - dot_recall@5
40
+ - dot_recall@10
41
+ - dot_ndcg@10
42
+ - dot_mrr@10
43
+ - dot_map@100
44
+ widget:
45
+ - source_sentence: Pulmonary stenoses, brachytelephalangy, inner ear deafness
46
+ sentences:
47
+ - "This article needs more medical references for verification or relies too heavily\
48
+ \ on primary sources. Please review the contents of the article and add the appropriate\
49
+ \ references if you can. Unsourced or poorly sourced material may be challenged\
50
+ \ and removed. \nFind sources: \"Chondropathy\" – news · newspapers · books ·\
51
+ \ scholar · JSTOR (October 2020) \n \nChondropathy \nSpecialtyOrthopedics \
52
+ \ \n \nChondropathy refers to a disease of the cartilage. It is frequently divided\
53
+ \ into 5 grades, with 0-2 defined as normal and 3-4 defined as diseased.\n\n##\
54
+ \ Contents\n\n * 1 Some common diseases affecting/involving the cartilage\n \
55
+ \ * 2 Repairing articular cartilage damage\n * 3 References\n * 4 External links\n\
56
+ \n## Some common diseases affecting/involving the cartilage[edit]"
57
+ - 'A number sign (#) is used with this entry because of evidence that Keutel syndrome
58
+ (KTLS) is caused by homozygous mutation in the gene encoding the human matrix
59
+ Gla protein (MGP; 154870) on chromosome 12p12.
60
+
61
+
62
+ Description
63
+
64
+
65
+ Keutel syndrome is an autosomal recessive disorder characterized by multiple peripheral
66
+ pulmonary stenoses, brachytelephalangy, inner ear deafness, and abnormal cartilage
67
+ ossification or calcification (summary by Khosroshahi et al., 2014).
68
+
69
+
70
+ Clinical Features'
71
+ - '## Description
72
+
73
+
74
+ Primary or spontaneous detachment of the retina occurs due to underlying ocular
75
+ disease and often involves the vitreous as well as the retina. The precipitating
76
+ event is formation of a retinal tear or hole, which permits fluid to accumulate
77
+ under the sensory layers of the retina and creates an intraretinal cleavage that
78
+ destroys the neurosensory process of visual reception. Vitreoretinal degeneration
79
+ and tear formation are painless phenomena, and in most cases, significant vitreoretinal
80
+ pathology is found only after detachment of the retina starts to cause loss of
81
+ vision or visual field. Without surgical intervention, retinal detachment will
82
+ almost inevitably lead to total blindness (summary by McNiel and McPherson, 1971).
83
+
84
+
85
+ Clinical Features'
86
+ - source_sentence: APS, catastrophic, diagnostic criteria, treatment options
87
+ sentences:
88
+ - 'A number sign (#) is used with this entry because of evidence that myofibrillar
89
+ myopathy-8 (MFM8) is caused by homozygous or compound heterozygous mutation in
90
+ the PYROXD1 gene (617220) on chromosome 12p12.
91
+
92
+
93
+ Description
94
+
95
+
96
+ Myofibrillar myopathy-8 is an autosomal recessive myopathy characterized by childhood
97
+ onset of slowly progressive proximal muscle weakness and atrophy resulting in
98
+ increased falls, gait problems, and difficulty running or climbing stairs. Upper
99
+ and lower limbs are affected, and some individuals develop distal muscle weakness
100
+ and atrophy. Ambulation is generally preserved, and patients do not have significant
101
+ respiratory compromise. Muscle biopsy shows a mix of myopathic features, including
102
+ myofibrillar inclusions and sarcomeric disorganization (summary by O''Grady et
103
+ al., 2016).
104
+
105
+
106
+ For a general phenotypic description and a discussion of genetic heterogeneity
107
+ of myofibrillar myopathy, see MFM1 (601419).
108
+
109
+
110
+ Clinical Features'
111
+ - "Rectal tenesmus \nSpecialtyGeneral surgery \n \nRectal tenesmus is a feeling\
112
+ \ of incomplete defecation. It is the sensation of inability or difficulty to\
113
+ \ empty the bowel at defecation, even if the bowel contents have already been\
114
+ \ evacuated. Tenesmus indicates the feeling of a residue, and is not always correlated\
115
+ \ with the actual presence of residual fecal matter in the rectum. It is frequently\
116
+ \ painful and may be accompanied by involuntary straining and other gastrointestinal\
117
+ \ symptoms. Tenesmus has both a nociceptive and a neuropathic component.\n\nVesical\
118
+ \ tenesmus is a similar condition, experienced as a feeling of incomplete voiding\
119
+ \ despite the bladder being empty.\n\nOften, rectal tenesmus is simply called\
120
+ \ tenesmus. The term rectal tenesmus is a retronym to distinguish defecation-related\
121
+ \ tenesmus from vesical tenesmus.[1]"
122
+ - "This article needs additional citations for verification. Please help improve\
123
+ \ this article by adding citations to reliable sources. Unsourced material may\
124
+ \ be challenged and removed. \nFind sources: \"Catastrophic antiphospholipid\
125
+ \ syndrome\" – news · newspapers · books · scholar · JSTOR (February 2018) (Learn\
126
+ \ how and when to remove this template message) \n \nCatastrophic antiphospholipid\
127
+ \ syndrome \nOther namesCatastrophic APS"
128
+ - source_sentence: Excess cholesterol, foam cells, gallbladder wall changes
129
+ sentences:
130
+ - "Cholesterolosis of gallbladder \nMicrograph of cholesterolosis of the gallbladder,\
131
+ \ with an annotated foam cell. H&E stain. \nSpecialtyGastroenterology \n \n\
132
+ In surgical pathology, strawberry gallbladder, more formally cholesterolosis of\
133
+ \ the gallbladder and gallbladder cholesterolosis, is a change in the gallbladder\
134
+ \ wall due to excess cholesterol.[1]\n\nThe name strawberry gallbladder comes\
135
+ \ from the typically stippled appearance of the mucosal surface on gross examination,\
136
+ \ which resembles a strawberry. Cholesterolosis results from abnormal deposits\
137
+ \ of cholesterol esters in macrophages within the lamina propria (foam cells)\
138
+ \ and in mucosal epithelium. The gallbladder may be affected in a patchy localized\
139
+ \ form or in a diffuse form. The diffuse form macroscopically appears as a bright\
140
+ \ red mucosa with yellow mottling (due to lipid), hence the term strawberry gallbladder.\
141
+ \ It is not tied to cholelithiasis (gallstones) or cholecystitis (inflammation\
142
+ \ of the gallbladder).[2]\n\n## Contents"
143
+ - Meningococcal meningitis is an acute bacterial disease caused by Neisseria meningitides
144
+ that presents usually, but not always, with a rash (non blanching petechial or
145
+ purpuric rash), progressively developing signs of meningitis (fever, vomiting,
146
+ headache, photophobia, and neck stiffness) and later leading to confusion, delirium
147
+ and drowsiness. Neck stiffness and photophobia are often absent in infants and
148
+ young children who may manifest nonspecific signs such as irritability, inconsolable
149
+ crying, poor feeding, and a bulging fontanel. Meningococcal meningitis may also
150
+ present as part of early or late onset sepsis in neonates. The disease is potentially
151
+ fatal. Surviving patients may develop neurological sequelae that include sensorineural
152
+ hearing loss, seizures, spasticity, attention deficits and intellectual disability.
153
+ - "Retiform parapsoriasis \nSpecialtyDermatology \n \nRetiform parapsoriasis\
154
+ \ is a cutaneous condition, considered to be a type of large-plaque parapsoriasis.[1]\
155
+ \ It is characterized by widespread, ill-defined plaques on the skin, that have\
156
+ \ a net-like or zebra-striped pattern.[2] Skin atrophy, a wasting away of the\
157
+ \ cutaneous tissue, usually occurs within the area of these plaques.[1]\n\n##\
158
+ \ See also[edit]\n\n * Parapsoriasis\n * Poikiloderma vasculare atrophicans\n\
159
+ \ * List of cutaneous conditions\n\n## References[edit]\n\n 1. ^ a b Lambert\
160
+ \ WC, Everett MA (Oct 1981). \"The nosology of parapsoriasis\". J. Am. Acad. Dermatol.\
161
+ \ 5 (4): 373–95. doi:10.1016/S0190-9622(81)70100-2. PMID 7026622.\n 2. ^ Rapini,\
162
+ \ Ronald P.; Bolognia, Jean L.; Jorizzo, Joseph L. (2007). Dermatology: 2-Volume\
163
+ \ Set. St. Louis: Mosby. ISBN 1-4160-2999-0.\n\n## External links[edit]\n\nClassification\n\
164
+ \nD\n\n * ICD-10: L41.5\n * ICD-9-CM: 696.2\n\n \n \n * v\n * t\n * e\n\
165
+ \nPapulosquamous disorders \n \nPsoriasis\n\nPustular"
166
+ - source_sentence: Pulmonary hypoplasia, respiratory insufficiency, megaureter, hydronephrosis
167
+ sentences:
168
+ - 'A rare fetal lower urinary tract obstruction (LUTO) characterized by closure
169
+ or failure to develop an opening in the urethra and resulting in obstructive uropathy
170
+ presenting in utero as megacystis, oligohydramnios or anhydramnios, and potter
171
+ sequence.
172
+
173
+
174
+ ## Epidemiology
175
+
176
+
177
+ Prevalence is unknown, but is higher in males than females.
178
+
179
+
180
+ ## Clinical description
181
+
182
+
183
+ Atresia of urethra often presents on routine antenatal ultrasound with megacystis,
184
+ oligohydramnios or anhydramnios and sometimes urinary ascites. It may cause fetal
185
+ death. In cases that survive to birth, additional symptoms include respiratory
186
+ insufficiency due to pulmonary hypoplasia, megaureter, hydronephrosis and enlarged
187
+ often cystic and functionally impaired/non-functional dysplastic kidneys as well
188
+ as abdominal distention. Furthermore, a Potter sequence can be found due to oligo-
189
+ or anhydramnios. Patients may present with patent urachus or vesicocutaneous fistula.
190
+
191
+
192
+ ## Etiology'
193
+ - X-linked distal spinal muscular atrophy type 3 is a rare distal hereditary motor
194
+ neuropathy characterized by slowly progressive atrophy and weakness of distal
195
+ muscles of hands and feet with normal deep tendon reflexes or absent ankle reflexes
196
+ and minimal or no sensory loss, sometimes mild proximal weakness in the legs and
197
+ feet and hand deformities in males.
198
+ - 'A number sign (#) is used with this entry because Chudley-McCullough syndrome
199
+ (CMCS) is caused by homozygous or compound heterozygous mutation in the GPSM2
200
+ gene (609245) on chromosome 1p13.
201
+
202
+
203
+ Description
204
+
205
+
206
+ Chudley-McCullough syndrome is an autosomal recessive neurologic disorder characterized
207
+ by early-onset sensorineural deafness and specific brain anomalies on MRI, including
208
+ hypoplasia of the corpus callosum, enlarged cysterna magna with mild focal cerebellar
209
+ dysplasia, and nodular heterotopia. Some patients have hydrocephalus. Psychomotor
210
+ development is normal (summary by Alrashdi et al., 2011).
211
+
212
+
213
+ Clinical Features'
214
+ - source_sentence: Thyroid-stimulating hormone receptor gene, chromosome 14q31, homozygous
215
+ mutation
216
+ sentences:
217
+ - 'A number sign (#) is used with this entry because dermatofibrosarcoma protuberans
218
+ is caused in most cases by a specific fusion of the COL1A1 gene (120150) with
219
+ the PDGFB gene (190040); see 190040.0002.
220
+
221
+
222
+ Description
223
+
224
+
225
+ Dermatofibrosarcoma protuberans (DFSP) is an uncommon, locally aggressive, but
226
+ rarely metastasizing tumor of the deep dermis and subcutaneous tissue. It typically
227
+ presents during early or middle adult life and is most frequently located on the
228
+ trunk and proximal extremities (Sandberg et al., 2003).
229
+
230
+
231
+ Clinical Features
232
+
233
+
234
+ DFSP was first described by Taylor (1890). Sirvent et al. (2003) stated that,
235
+ because DFSP is relatively rare, grows slowly, and has a low level of aggressiveness,
236
+ its clinical significance has been underestimated. In particular, they noted that
237
+ the existence of pediatric cases has been overlooked.
238
+
239
+
240
+ Gardner et al. (1998) described a father and son with dermatofibrosarcoma protuberans.
241
+ The tumors arose at ages 43 and 14 years, respectively.'
242
+ - "Visuospatial dysgnosia is a loss of the sense of \"whereness\" in the relation\
243
+ \ of oneself to one's environment and in the relation of objects to each other.[1]\
244
+ \ Visuospatial dysgnosia is often linked with topographical disorientation.\n\n\
245
+ ## Contents\n\n * 1 Symptoms\n * 2 Lesion areas\n * 3 Case studies\n * 4 Therapies\n\
246
+ \ * 5 References\n\n## Symptoms[edit]\n\nThe syndrome rarely presents itself\
247
+ \ the same way in every patient. Some symptoms that occur may be:"
248
+ - 'A number sign (#) is used with this entry because of evidence that congenital
249
+ nongoitrous hypothyroidism-1 (CHNG1) is caused by homozygous or compound heterozygous
250
+ mutation in the gene encoding the thyroid-stimulating hormone receptor (TSHR;
251
+ 603372) on chromosome 14q31.
252
+
253
+
254
+ Description
255
+
256
+
257
+ Resistance to thyroid-stimulating hormone (TSH; see 188540), a hallmark of congenital
258
+ nongoitrous hypothyroidism, causes increased levels of plasma TSH and low levels
259
+ of thyroid hormone. Only a subset of patients develop frank hypothyroidism; the
260
+ remainder are euthyroid and asymptomatic (so-called compensated hypothyroidism)
261
+ and are usually detected by neonatal screening programs (Paschke and Ludgate,
262
+ 1997).
263
+
264
+
265
+ ### Genetic Heterogeneity of Congenital Nongoitrous Hypothyroidism'
266
+ pipeline_tag: sentence-similarity
267
+ model-index:
268
+ - name: SentenceTransformer based on sentence-transformers/multi-qa-mpnet-base-dot-v1
269
+ results:
270
+ - task:
271
+ type: information-retrieval
272
+ name: Information Retrieval
273
+ dataset:
274
+ name: Unknown
275
+ type: unknown
276
+ metrics:
277
+ - type: cosine_accuracy@1
278
+ value: 0.1900990099009901
279
+ name: Cosine Accuracy@1
280
+ - type: cosine_accuracy@3
281
+ value: 0.5756875687568757
282
+ name: Cosine Accuracy@3
283
+ - type: cosine_accuracy@5
284
+ value: 0.7932893289328933
285
+ name: Cosine Accuracy@5
286
+ - type: cosine_accuracy@10
287
+ value: 0.8704070407040704
288
+ name: Cosine Accuracy@10
289
+ - type: cosine_precision@1
290
+ value: 0.1900990099009901
291
+ name: Cosine Precision@1
292
+ - type: cosine_precision@3
293
+ value: 0.19189585625229189
294
+ name: Cosine Precision@3
295
+ - type: cosine_precision@5
296
+ value: 0.15865786578657867
297
+ name: Cosine Precision@5
298
+ - type: cosine_precision@10
299
+ value: 0.08704070407040705
300
+ name: Cosine Precision@10
301
+ - type: cosine_recall@1
302
+ value: 0.1900990099009901
303
+ name: Cosine Recall@1
304
+ - type: cosine_recall@3
305
+ value: 0.5756875687568757
306
+ name: Cosine Recall@3
307
+ - type: cosine_recall@5
308
+ value: 0.7932893289328933
309
+ name: Cosine Recall@5
310
+ - type: cosine_recall@10
311
+ value: 0.8704070407040704
312
+ name: Cosine Recall@10
313
+ - type: cosine_ndcg@10
314
+ value: 0.526584144074431
315
+ name: Cosine Ndcg@10
316
+ - type: cosine_mrr@10
317
+ value: 0.41522683220700946
318
+ name: Cosine Mrr@10
319
+ - type: cosine_map@100
320
+ value: 0.4194005014371134
321
+ name: Cosine Map@100
322
+ - type: dot_accuracy@1
323
+ value: 0.188998899889989
324
+ name: Dot Accuracy@1
325
+ - type: dot_accuracy@3
326
+ value: 0.5761826182618262
327
+ name: Dot Accuracy@3
328
+ - type: dot_accuracy@5
329
+ value: 0.7954895489548955
330
+ name: Dot Accuracy@5
331
+ - type: dot_accuracy@10
332
+ value: 0.8710671067106711
333
+ name: Dot Accuracy@10
334
+ - type: dot_precision@1
335
+ value: 0.188998899889989
336
+ name: Dot Precision@1
337
+ - type: dot_precision@3
338
+ value: 0.19206087275394204
339
+ name: Dot Precision@3
340
+ - type: dot_precision@5
341
+ value: 0.15909790979097907
342
+ name: Dot Precision@5
343
+ - type: dot_precision@10
344
+ value: 0.08710671067106711
345
+ name: Dot Precision@10
346
+ - type: dot_recall@1
347
+ value: 0.188998899889989
348
+ name: Dot Recall@1
349
+ - type: dot_recall@3
350
+ value: 0.5761826182618262
351
+ name: Dot Recall@3
352
+ - type: dot_recall@5
353
+ value: 0.7954895489548955
354
+ name: Dot Recall@5
355
+ - type: dot_recall@10
356
+ value: 0.8710671067106711
357
+ name: Dot Recall@10
358
+ - type: dot_ndcg@10
359
+ value: 0.5265923432373186
360
+ name: Dot Ndcg@10
361
+ - type: dot_mrr@10
362
+ value: 0.4149802896956161
363
+ name: Dot Mrr@10
364
+ - type: dot_map@100
365
+ value: 0.41904239679820193
366
+ name: Dot Map@100
367
+ ---
368
+
369
+ # SentenceTransformer based on sentence-transformers/multi-qa-mpnet-base-dot-v1
370
+
371
+ This is a [sentence-transformers](https://www.SBERT.net) model finetuned from [sentence-transformers/multi-qa-mpnet-base-dot-v1](https://huggingface.co/sentence-transformers/multi-qa-mpnet-base-dot-v1). It maps sentences & paragraphs to a 768-dimensional dense vector space and can be used for semantic textual similarity, semantic search, paraphrase mining, text classification, clustering, and more.
372
+
373
+ ## Model Details
374
+
375
+ ### Model Description
376
+ - **Model Type:** Sentence Transformer
377
+ - **Base model:** [sentence-transformers/multi-qa-mpnet-base-dot-v1](https://huggingface.co/sentence-transformers/multi-qa-mpnet-base-dot-v1) <!-- at revision 3af7c6da5b3e1bea796ef6c97fe237538cbe6e7f -->
378
+ - **Maximum Sequence Length:** 512 tokens
379
+ - **Output Dimensionality:** 768 tokens
380
+ - **Similarity Function:** Dot Product
381
+ <!-- - **Training Dataset:** Unknown -->
382
+ <!-- - **Language:** Unknown -->
383
+ <!-- - **License:** Unknown -->
384
+
385
+ ### Model Sources
386
+
387
+ - **Documentation:** [Sentence Transformers Documentation](https://sbert.net)
388
+ - **Repository:** [Sentence Transformers on GitHub](https://github.com/UKPLab/sentence-transformers)
389
+ - **Hugging Face:** [Sentence Transformers on Hugging Face](https://huggingface.co/models?library=sentence-transformers)
390
+
391
+ ### Full Model Architecture
392
+
393
+ ```
394
+ SentenceTransformer(
395
+ (0): Transformer({'max_seq_length': 512, 'do_lower_case': False}) with Transformer model: MPNetModel
396
+ (1): Pooling({'word_embedding_dimension': 768, 'pooling_mode_cls_token': True, 'pooling_mode_mean_tokens': False, 'pooling_mode_max_tokens': False, 'pooling_mode_mean_sqrt_len_tokens': False, 'pooling_mode_weightedmean_tokens': False, 'pooling_mode_lasttoken': False, 'include_prompt': True})
397
+ )
398
+ ```
399
+
400
+ ## Usage
401
+
402
+ ### Direct Usage (Sentence Transformers)
403
+
404
+ First install the Sentence Transformers library:
405
+
406
+ ```bash
407
+ pip install -U sentence-transformers
408
+ ```
409
+
410
+ Then you can load this model and run inference.
411
+ ```python
412
+ from sentence_transformers import SentenceTransformer
413
+
414
+ # Download from the 🤗 Hub
415
+ model = SentenceTransformer("sentence_transformers_model_id")
416
+ # Run inference
417
+ sentences = [
418
+ 'Thyroid-stimulating hormone receptor gene, chromosome 14q31, homozygous mutation',
419
+ 'A number sign (#) is used with this entry because of evidence that congenital nongoitrous hypothyroidism-1 (CHNG1) is caused by homozygous or compound heterozygous mutation in the gene encoding the thyroid-stimulating hormone receptor (TSHR; 603372) on chromosome 14q31.\n\nDescription\n\nResistance to thyroid-stimulating hormone (TSH; see 188540), a hallmark of congenital nongoitrous hypothyroidism, causes increased levels of plasma TSH and low levels of thyroid hormone. Only a subset of patients develop frank hypothyroidism; the remainder are euthyroid and asymptomatic (so-called compensated hypothyroidism) and are usually detected by neonatal screening programs (Paschke and Ludgate, 1997).\n\n### Genetic Heterogeneity of Congenital Nongoitrous Hypothyroidism',
420
+ 'Visuospatial dysgnosia is a loss of the sense of "whereness" in the relation of oneself to one\'s environment and in the relation of objects to each other.[1] Visuospatial dysgnosia is often linked with topographical disorientation.\n\n## Contents\n\n * 1 Symptoms\n * 2 Lesion areas\n * 3 Case studies\n * 4 Therapies\n * 5 References\n\n## Symptoms[edit]\n\nThe syndrome rarely presents itself the same way in every patient. Some symptoms that occur may be:',
421
+ ]
422
+ embeddings = model.encode(sentences)
423
+ print(embeddings.shape)
424
+ # [3, 768]
425
+
426
+ # Get the similarity scores for the embeddings
427
+ similarities = model.similarity(embeddings, embeddings)
428
+ print(similarities.shape)
429
+ # [3, 3]
430
+ ```
431
+
432
+ <!--
433
+ ### Direct Usage (Transformers)
434
+
435
+ <details><summary>Click to see the direct usage in Transformers</summary>
436
+
437
+ </details>
438
+ -->
439
+
440
+ <!--
441
+ ### Downstream Usage (Sentence Transformers)
442
+
443
+ You can finetune this model on your own dataset.
444
+
445
+ <details><summary>Click to expand</summary>
446
+
447
+ </details>
448
+ -->
449
+
450
+ <!--
451
+ ### Out-of-Scope Use
452
+
453
+ *List how the model may foreseeably be misused and address what users ought not to do with the model.*
454
+ -->
455
+
456
+ ## Evaluation
457
+
458
+ ### Metrics
459
+
460
+ #### Information Retrieval
461
+
462
+ * Evaluated with [<code>InformationRetrievalEvaluator</code>](https://sbert.net/docs/package_reference/sentence_transformer/evaluation.html#sentence_transformers.evaluation.InformationRetrievalEvaluator)
463
+
464
+ | Metric | Value |
465
+ |:--------------------|:----------|
466
+ | cosine_accuracy@1 | 0.1901 |
467
+ | cosine_accuracy@3 | 0.5757 |
468
+ | cosine_accuracy@5 | 0.7933 |
469
+ | cosine_accuracy@10 | 0.8704 |
470
+ | cosine_precision@1 | 0.1901 |
471
+ | cosine_precision@3 | 0.1919 |
472
+ | cosine_precision@5 | 0.1587 |
473
+ | cosine_precision@10 | 0.087 |
474
+ | cosine_recall@1 | 0.1901 |
475
+ | cosine_recall@3 | 0.5757 |
476
+ | cosine_recall@5 | 0.7933 |
477
+ | cosine_recall@10 | 0.8704 |
478
+ | cosine_ndcg@10 | 0.5266 |
479
+ | cosine_mrr@10 | 0.4152 |
480
+ | cosine_map@100 | 0.4194 |
481
+ | dot_accuracy@1 | 0.189 |
482
+ | dot_accuracy@3 | 0.5762 |
483
+ | dot_accuracy@5 | 0.7955 |
484
+ | dot_accuracy@10 | 0.8711 |
485
+ | dot_precision@1 | 0.189 |
486
+ | dot_precision@3 | 0.1921 |
487
+ | dot_precision@5 | 0.1591 |
488
+ | dot_precision@10 | 0.0871 |
489
+ | dot_recall@1 | 0.189 |
490
+ | dot_recall@3 | 0.5762 |
491
+ | dot_recall@5 | 0.7955 |
492
+ | dot_recall@10 | 0.8711 |
493
+ | dot_ndcg@10 | 0.5266 |
494
+ | dot_mrr@10 | 0.415 |
495
+ | **dot_map@100** | **0.419** |
496
+
497
+ <!--
498
+ ## Bias, Risks and Limitations
499
+
500
+ *What are the known or foreseeable issues stemming from this model? You could also flag here known failure cases or weaknesses of the model.*
501
+ -->
502
+
503
+ <!--
504
+ ### Recommendations
505
+
506
+ *What are recommendations with respect to the foreseeable issues? For example, filtering explicit content.*
507
+ -->
508
+
509
+ ## Training Details
510
+
511
+ ### Training Dataset
512
+
513
+ #### Unnamed Dataset
514
+
515
+
516
+ * Size: 89,218 training samples
517
+ * Columns: <code>queries</code> and <code>chunks</code>
518
+ * Approximate statistics based on the first 1000 samples:
519
+ | | queries | chunks |
520
+ |:--------|:----------------------------------------------------------------------------------|:------------------------------------------------------------------------------------|
521
+ | type | string | string |
522
+ | details | <ul><li>min: 7 tokens</li><li>mean: 18.07 tokens</li><li>max: 63 tokens</li></ul> | <ul><li>min: 5 tokens</li><li>mean: 161.59 tokens</li><li>max: 299 tokens</li></ul> |
523
+ * Samples:
524
+ | queries | chunks |
525
+ |:--------------------------------------------------------------------|:-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|
526
+ | <code>Polyhydramnios, megalencephaly, symptomatic epilepsy</code> | <code>A number sign (#) is used with this entry because of evidence that polyhydramnios, megalencephaly, and symptomatic epilepsy (PMSE) is caused by homozygous mutation in the STRADA gene (608626) on chromosome 17q23.<br><br>Clinical Features</code> |
527
+ | <code>Polyhydramnios, megalencephaly, STRADA gene mutation</code> | <code>A number sign (#) is used with this entry because of evidence that polyhydramnios, megalencephaly, and symptomatic epilepsy (PMSE) is caused by homozygous mutation in the STRADA gene (608626) on chromosome 17q23.<br><br>Clinical Features</code> |
528
+ | <code>Megalencephaly, symptomatic epilepsy, chromosome 17q23</code> | <code>A number sign (#) is used with this entry because of evidence that polyhydramnios, megalencephaly, and symptomatic epilepsy (PMSE) is caused by homozygous mutation in the STRADA gene (608626) on chromosome 17q23.<br><br>Clinical Features</code> |
529
+ * Loss: [<code>MultipleNegativesRankingLoss</code>](https://sbert.net/docs/package_reference/sentence_transformer/losses.html#multiplenegativesrankingloss) with these parameters:
530
+ ```json
531
+ {
532
+ "scale": 1,
533
+ "similarity_fct": "dot_score"
534
+ }
535
+ ```
536
+
537
+ ### Evaluation Dataset
538
+
539
+ #### Unnamed Dataset
540
+
541
+
542
+ * Size: 18,180 evaluation samples
543
+ * Columns: <code>queries</code> and <code>chunks</code>
544
+ * Approximate statistics based on the first 1000 samples:
545
+ | | queries | chunks |
546
+ |:--------|:----------------------------------------------------------------------------------|:------------------------------------------------------------------------------------|
547
+ | type | string | string |
548
+ | details | <ul><li>min: 6 tokens</li><li>mean: 18.35 tokens</li><li>max: 82 tokens</li></ul> | <ul><li>min: 4 tokens</li><li>mean: 152.55 tokens</li><li>max: 312 tokens</li></ul> |
549
+ * Samples:
550
+ | queries | chunks |
551
+ |:-----------------------------------------------------------------------------------|:-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|
552
+ | <code>Weight loss, anorexia, fatigue, epigastric pain and discomfort</code> | <code>Undifferentiated carcinoma of stomach is a rare epithelial tumour of the stomach that lacks any features of differentiation beyond an epithelial phenotype. The presenting symptoms are usually vague and nonspecific, such as weight loss, anorexia, fatigue, epigastric pain and discomfort, heartburn and nausea, vomiting or hematemesis. Patients may also be asymptomatic. Ascites, jaundice, intestinal obstruction and peripheral lymphadenopathy indicate advanced stages and metastatic spread.</code> |
553
+ | <code>Heartburn, nausea, vomiting, hematemesis</code> | <code>Undifferentiated carcinoma of stomach is a rare epithelial tumour of the stomach that lacks any features of differentiation beyond an epithelial phenotype. The presenting symptoms are usually vague and nonspecific, such as weight loss, anorexia, fatigue, epigastric pain and discomfort, heartburn and nausea, vomiting or hematemesis. Patients may also be asymptomatic. Ascites, jaundice, intestinal obstruction and peripheral lymphadenopathy indicate advanced stages and metastatic spread.</code> |
554
+ | <code>Ascites, jaundice, intestinal obstruction, peripheral lymphadenopathy</code> | <code>Undifferentiated carcinoma of stomach is a rare epithelial tumour of the stomach that lacks any features of differentiation beyond an epithelial phenotype. The presenting symptoms are usually vague and nonspecific, such as weight loss, anorexia, fatigue, epigastric pain and discomfort, heartburn and nausea, vomiting or hematemesis. Patients may also be asymptomatic. Ascites, jaundice, intestinal obstruction and peripheral lymphadenopathy indicate advanced stages and metastatic spread.</code> |
555
+ * Loss: [<code>MultipleNegativesRankingLoss</code>](https://sbert.net/docs/package_reference/sentence_transformer/losses.html#multiplenegativesrankingloss) with these parameters:
556
+ ```json
557
+ {
558
+ "scale": 1,
559
+ "similarity_fct": "dot_score"
560
+ }
561
+ ```
562
+
563
+ ### Training Hyperparameters
564
+ #### Non-Default Hyperparameters
565
+
566
+ - `eval_strategy`: steps
567
+ - `per_device_train_batch_size`: 32
568
+ - `per_device_eval_batch_size`: 32
569
+ - `learning_rate`: 2e-05
570
+ - `num_train_epochs`: 50
571
+ - `warmup_ratio`: 0.1
572
+ - `fp16`: True
573
+ - `load_best_model_at_end`: True
574
+ - `eval_on_start`: True
575
+ - `batch_sampler`: no_duplicates
576
+
577
+ #### All Hyperparameters
578
+ <details><summary>Click to expand</summary>
579
+
580
+ - `overwrite_output_dir`: False
581
+ - `do_predict`: False
582
+ - `eval_strategy`: steps
583
+ - `prediction_loss_only`: True
584
+ - `per_device_train_batch_size`: 32
585
+ - `per_device_eval_batch_size`: 32
586
+ - `per_gpu_train_batch_size`: None
587
+ - `per_gpu_eval_batch_size`: None
588
+ - `gradient_accumulation_steps`: 1
589
+ - `eval_accumulation_steps`: None
590
+ - `torch_empty_cache_steps`: None
591
+ - `learning_rate`: 2e-05
592
+ - `weight_decay`: 0.0
593
+ - `adam_beta1`: 0.9
594
+ - `adam_beta2`: 0.999
595
+ - `adam_epsilon`: 1e-08
596
+ - `max_grad_norm`: 1.0
597
+ - `num_train_epochs`: 50
598
+ - `max_steps`: -1
599
+ - `lr_scheduler_type`: linear
600
+ - `lr_scheduler_kwargs`: {}
601
+ - `warmup_ratio`: 0.1
602
+ - `warmup_steps`: 0
603
+ - `log_level`: passive
604
+ - `log_level_replica`: warning
605
+ - `log_on_each_node`: True
606
+ - `logging_nan_inf_filter`: True
607
+ - `save_safetensors`: True
608
+ - `save_on_each_node`: False
609
+ - `save_only_model`: False
610
+ - `restore_callback_states_from_checkpoint`: False
611
+ - `no_cuda`: False
612
+ - `use_cpu`: False
613
+ - `use_mps_device`: False
614
+ - `seed`: 42
615
+ - `data_seed`: None
616
+ - `jit_mode_eval`: False
617
+ - `use_ipex`: False
618
+ - `bf16`: False
619
+ - `fp16`: True
620
+ - `fp16_opt_level`: O1
621
+ - `half_precision_backend`: auto
622
+ - `bf16_full_eval`: False
623
+ - `fp16_full_eval`: False
624
+ - `tf32`: None
625
+ - `local_rank`: 0
626
+ - `ddp_backend`: None
627
+ - `tpu_num_cores`: None
628
+ - `tpu_metrics_debug`: False
629
+ - `debug`: []
630
+ - `dataloader_drop_last`: True
631
+ - `dataloader_num_workers`: 0
632
+ - `dataloader_prefetch_factor`: None
633
+ - `past_index`: -1
634
+ - `disable_tqdm`: False
635
+ - `remove_unused_columns`: True
636
+ - `label_names`: None
637
+ - `load_best_model_at_end`: True
638
+ - `ignore_data_skip`: False
639
+ - `fsdp`: []
640
+ - `fsdp_min_num_params`: 0
641
+ - `fsdp_config`: {'min_num_params': 0, 'xla': False, 'xla_fsdp_v2': False, 'xla_fsdp_grad_ckpt': False}
642
+ - `fsdp_transformer_layer_cls_to_wrap`: None
643
+ - `accelerator_config`: {'split_batches': False, 'dispatch_batches': None, 'even_batches': True, 'use_seedable_sampler': True, 'non_blocking': False, 'gradient_accumulation_kwargs': None}
644
+ - `deepspeed`: None
645
+ - `label_smoothing_factor`: 0.0
646
+ - `optim`: adamw_torch
647
+ - `optim_args`: None
648
+ - `adafactor`: False
649
+ - `group_by_length`: False
650
+ - `length_column_name`: length
651
+ - `ddp_find_unused_parameters`: None
652
+ - `ddp_bucket_cap_mb`: None
653
+ - `ddp_broadcast_buffers`: False
654
+ - `dataloader_pin_memory`: True
655
+ - `dataloader_persistent_workers`: False
656
+ - `skip_memory_metrics`: True
657
+ - `use_legacy_prediction_loop`: False
658
+ - `push_to_hub`: False
659
+ - `resume_from_checkpoint`: None
660
+ - `hub_model_id`: None
661
+ - `hub_strategy`: every_save
662
+ - `hub_private_repo`: False
663
+ - `hub_always_push`: False
664
+ - `gradient_checkpointing`: False
665
+ - `gradient_checkpointing_kwargs`: None
666
+ - `include_inputs_for_metrics`: False
667
+ - `eval_do_concat_batches`: True
668
+ - `fp16_backend`: auto
669
+ - `push_to_hub_model_id`: None
670
+ - `push_to_hub_organization`: None
671
+ - `mp_parameters`:
672
+ - `auto_find_batch_size`: False
673
+ - `full_determinism`: False
674
+ - `torchdynamo`: None
675
+ - `ray_scope`: last
676
+ - `ddp_timeout`: 1800
677
+ - `torch_compile`: False
678
+ - `torch_compile_backend`: None
679
+ - `torch_compile_mode`: None
680
+ - `dispatch_batches`: None
681
+ - `split_batches`: None
682
+ - `include_tokens_per_second`: False
683
+ - `include_num_input_tokens_seen`: False
684
+ - `neftune_noise_alpha`: None
685
+ - `optim_target_modules`: None
686
+ - `batch_eval_metrics`: False
687
+ - `eval_on_start`: True
688
+ - `eval_use_gather_object`: False
689
+ - `batch_sampler`: no_duplicates
690
+ - `multi_dataset_batch_sampler`: proportional
691
+
692
+ </details>
693
+
694
+ ### Training Logs
695
+ <details><summary>Click to expand</summary>
696
+
697
+ | Epoch | Step | Training Loss | loss | dot_map@100 |
698
+ |:-----------:|:--------:|:-------------:|:----------:|:-----------:|
699
+ | 0 | 0 | - | 1.1605 | 0.2419 |
700
+ | 0.1435 | 100 | 1.2016 | - | - |
701
+ | 0.2869 | 200 | 0.7627 | - | - |
702
+ | 0.4304 | 300 | 0.5559 | - | - |
703
+ | 0.5739 | 400 | 0.4541 | - | - |
704
+ | 0.7174 | 500 | 0.1451 | 0.3600 | 0.3913 |
705
+ | 0.8608 | 600 | 0.3841 | - | - |
706
+ | 1.0057 | 700 | 0.3334 | - | - |
707
+ | 1.1492 | 800 | 0.3898 | - | - |
708
+ | 1.2927 | 900 | 0.3576 | - | - |
709
+ | 1.4362 | 1000 | 0.3563 | 0.2719 | 0.4127 |
710
+ | 1.5796 | 1100 | 0.3186 | - | - |
711
+ | 1.7231 | 1200 | 0.098 | - | - |
712
+ | 1.8666 | 1300 | 0.3038 | - | - |
713
+ | 2.0115 | 1400 | 0.2629 | - | - |
714
+ | 2.1549 | 1500 | 0.3221 | 0.2579 | 0.4155 |
715
+ | 2.2984 | 1600 | 0.2936 | - | - |
716
+ | 2.4419 | 1700 | 0.2867 | - | - |
717
+ | 2.5854 | 1800 | 0.2614 | - | - |
718
+ | 2.7288 | 1900 | 0.0716 | - | - |
719
+ | 2.8723 | 2000 | 0.2655 | 0.2546 | 0.4152 |
720
+ | 3.0172 | 2100 | 0.2187 | - | - |
721
+ | 3.1607 | 2200 | 0.2623 | - | - |
722
+ | 3.3042 | 2300 | 0.2462 | - | - |
723
+ | 3.4476 | 2400 | 0.2363 | - | - |
724
+ | 3.5911 | 2500 | 0.213 | 0.2866 | 0.4227 |
725
+ | 3.7346 | 2600 | 0.0487 | - | - |
726
+ | 3.8780 | 2700 | 0.222 | - | - |
727
+ | 4.0230 | 2800 | 0.1851 | - | - |
728
+ | 4.1664 | 2900 | 0.224 | - | - |
729
+ | 4.3099 | 3000 | 0.2111 | 0.2562 | 0.4215 |
730
+ | 4.4534 | 3100 | 0.1984 | - | - |
731
+ | 4.5968 | 3200 | 0.1707 | - | - |
732
+ | 4.7403 | 3300 | 0.0331 | - | - |
733
+ | 4.8838 | 3400 | 0.1896 | - | - |
734
+ | 5.0287 | 3500 | 0.1548 | 0.2643 | 0.4151 |
735
+ | 5.1722 | 3600 | 0.19 | - | - |
736
+ | 5.3156 | 3700 | 0.1656 | - | - |
737
+ | 5.4591 | 3800 | 0.1626 | - | - |
738
+ | 5.6026 | 3900 | 0.1303 | - | - |
739
+ | 5.7461 | 4000 | 0.0264 | 0.2952 | 0.4186 |
740
+ | 5.8895 | 4100 | 0.1563 | - | - |
741
+ | 6.0344 | 4200 | 0.1286 | - | - |
742
+ | 6.1779 | 4300 | 0.1436 | - | - |
743
+ | 6.3214 | 4400 | 0.1352 | - | - |
744
+ | 6.4648 | 4500 | 0.1344 | 0.2668 | 0.4218 |
745
+ | 6.6083 | 4600 | 0.1069 | - | - |
746
+ | 6.7518 | 4700 | 0.0171 | - | - |
747
+ | 6.8953 | 4800 | 0.1246 | - | - |
748
+ | 7.0402 | 4900 | 0.1074 | - | - |
749
+ | 7.1836 | 5000 | 0.1192 | 0.2837 | 0.4166 |
750
+ | 7.3271 | 5100 | 0.1176 | - | - |
751
+ | 7.4706 | 5200 | 0.111 | - | - |
752
+ | 7.6141 | 5300 | 0.0889 | - | - |
753
+ | 7.7575 | 5400 | 0.0202 | - | - |
754
+ | 7.9010 | 5500 | 0.1059 | 0.2797 | 0.4166 |
755
+ | 8.0459 | 5600 | 0.0854 | - | - |
756
+ | 8.1894 | 5700 | 0.0989 | - | - |
757
+ | 8.3329 | 5800 | 0.0963 | - | - |
758
+ | 8.4763 | 5900 | 0.0967 | - | - |
759
+ | 8.6198 | 6000 | 0.0635 | 0.2974 | 0.4223 |
760
+ | 8.7633 | 6100 | 0.0215 | - | - |
761
+ | 8.9067 | 6200 | 0.0897 | - | - |
762
+ | 9.0516 | 6300 | 0.0693 | - | - |
763
+ | 9.1951 | 6400 | 0.0913 | - | - |
764
+ | 9.3386 | 6500 | 0.0883 | 0.2812 | 0.4171 |
765
+ | 9.4821 | 6600 | 0.0849 | - | - |
766
+ | 9.6255 | 6700 | 0.0525 | - | - |
767
+ | 9.7690 | 6800 | 0.0196 | - | - |
768
+ | 9.9125 | 6900 | 0.0799 | - | - |
769
+ | 10.0574 | 7000 | 0.0603 | 0.2899 | 0.4132 |
770
+ | 10.2009 | 7100 | 0.0816 | - | - |
771
+ | 10.3443 | 7200 | 0.0771 | - | - |
772
+ | 10.4878 | 7300 | 0.0746 | - | - |
773
+ | 10.6313 | 7400 | 0.0373 | - | - |
774
+ | **10.7747** | **7500** | **0.0181** | **0.3148** | **0.419** |
775
+ | 10.9182 | 7600 | 0.0702 | - | - |
776
+ | 11.0631 | 7700 | 0.0531 | - | - |
777
+ | 11.2066 | 7800 | 0.0671 | - | - |
778
+ | 11.3501 | 7900 | 0.0742 | - | - |
779
+ | 11.4935 | 8000 | 0.0728 | 0.2878 | 0.4177 |
780
+ | 11.6370 | 8100 | 0.0331 | - | - |
781
+ | 11.7805 | 8200 | 0.0206 | - | - |
782
+ | 11.9240 | 8300 | 0.0605 | - | - |
783
+ | 12.0689 | 8400 | 0.05 | - | - |
784
+ | 12.2123 | 8500 | 0.06 | 0.3169 | 0.4180 |
785
+ | 12.3558 | 8600 | 0.0613 | - | - |
786
+ | 12.4993 | 8700 | 0.0649 | - | - |
787
+ | 12.6428 | 8800 | 0.0257 | - | - |
788
+ | 12.7862 | 8900 | 0.0184 | - | - |
789
+ | 12.9297 | 9000 | 0.055 | 0.3107 | 0.4189 |
790
+ | 13.0746 | 9100 | 0.0417 | - | - |
791
+ | 13.2181 | 9200 | 0.0537 | - | - |
792
+ | 13.3615 | 9300 | 0.0558 | - | - |
793
+ | 13.5050 | 9400 | 0.0619 | - | - |
794
+ | 13.6485 | 9500 | 0.0217 | 0.3140 | 0.4173 |
795
+ | 13.7920 | 9600 | 0.0257 | - | - |
796
+ | 13.9354 | 9700 | 0.0398 | - | - |
797
+ | 14.0803 | 9800 | 0.041 | - | - |
798
+ | 14.2238 | 9900 | 0.0451 | - | - |
799
+ | 14.3673 | 10000 | 0.0485 | 0.3085 | 0.4188 |
800
+ | 14.5108 | 10100 | 0.0565 | - | - |
801
+ | 14.6542 | 10200 | 0.0159 | - | - |
802
+ | 14.7977 | 10300 | 0.0258 | - | - |
803
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872
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875
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876
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877
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878
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879
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881
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882
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883
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884
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885
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886
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887
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888
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889
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890
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891
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892
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893
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894
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895
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896
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897
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898
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899
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900
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902
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903
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905
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906
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907
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908
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909
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910
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911
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912
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913
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914
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915
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916
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917
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918
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919
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920
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921
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922
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923
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924
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925
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926
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927
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928
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929
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930
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935
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937
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938
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940
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1030
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1031
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1032
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1033
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1035
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1037
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1038
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1040
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1041
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1042
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1043
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1045
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1046
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1047
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1048
+
1049
+ * The bold row denotes the saved checkpoint.
1050
+ </details>
1051
+
1052
+ ### Framework Versions
1053
+ - Python: 3.11.9
1054
+ - Sentence Transformers: 3.0.1
1055
+ - Transformers: 4.43.3
1056
+ - PyTorch: 2.3.1+cu121
1057
+ - Accelerate: 0.30.1
1058
+ - Datasets: 2.19.2
1059
+ - Tokenizers: 0.19.1
1060
+
1061
+ ## Citation
1062
+
1063
+ ### BibTeX
1064
+
1065
+ #### Sentence Transformers
1066
+ ```bibtex
1067
+ @inproceedings{reimers-2019-sentence-bert,
1068
+ title = "Sentence-BERT: Sentence Embeddings using Siamese BERT-Networks",
1069
+ author = "Reimers, Nils and Gurevych, Iryna",
1070
+ booktitle = "Proceedings of the 2019 Conference on Empirical Methods in Natural Language Processing",
1071
+ month = "11",
1072
+ year = "2019",
1073
+ publisher = "Association for Computational Linguistics",
1074
+ url = "https://arxiv.org/abs/1908.10084",
1075
+ }
1076
+ ```
1077
+
1078
+ #### MultipleNegativesRankingLoss
1079
+ ```bibtex
1080
+ @misc{henderson2017efficient,
1081
+ title={Efficient Natural Language Response Suggestion for Smart Reply},
1082
+ author={Matthew Henderson and Rami Al-Rfou and Brian Strope and Yun-hsuan Sung and Laszlo Lukacs and Ruiqi Guo and Sanjiv Kumar and Balint Miklos and Ray Kurzweil},
1083
+ year={2017},
1084
+ eprint={1705.00652},
1085
+ archivePrefix={arXiv},
1086
+ primaryClass={cs.CL}
1087
+ }
1088
+ ```
1089
+
1090
+ <!--
1091
+ ## Glossary
1092
+
1093
+ *Clearly define terms in order to be accessible across audiences.*
1094
+ -->
1095
+
1096
+ <!--
1097
+ ## Model Card Authors
1098
+
1099
+ *Lists the people who create the model card, providing recognition and accountability for the detailed work that goes into its construction.*
1100
+ -->
1101
+
1102
+ <!--
1103
+ ## Model Card Contact
1104
+
1105
+ *Provides a way for people who have updates to the Model Card, suggestions, or questions, to contact the Model Card authors.*
1106
+ -->
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