Merge branch 'deduplicate_flag'

RedPajama-Data-V2.py

@@ -19,10 +19,11 @@ import json
 
 import datasets
 import traceback
-import os
 import gzip
 from typing import List
 
+import pyarrow.parquet as pq
+
 logger = datasets.logging.get_logger(__name__)
 
 _DESCRIPTION = """\
@@ -31,7 +32,8 @@ RedPajama V2: an Open Dataset for Training Large Language Models
 
 _URL_BASE = 'https://data.together.xyz/redpajama-data-v2/v1.0.0'
 _LANGUAGES = ("en", "de", "fr", "es", "it")
-_LISTINGS_PATTERN = "listings/{language}-{snapshot}-{partition}.txt"
+_MISSING_FILES_PATTERN = "urls/missing-{component}.txt"
+_NUM_SHARDS = 5000
 
 _CC_SNAPSHOT_IDS = (
     "2014-15",
@@ -166,35 +168,42 @@ class RedPajamaV2(datasets.GeneratorBasedBuilder):
         )
 
     def _split_generators_sample(self, dl_manager):
-        # fetch documents
-        sample_listings = dl_manager.download_and_extract(
+        # fetch list of base tags
+        sample_base_tags_fp = dl_manager.download_and_extract(
             "sample/sample_listings.txt"
         )
-        with open(sample_listings, "r") as fd:
-            listings = [line.strip() for line in fd]
+        with open(sample_base_tags_fp, "r") as fd:
+            sample_base_tags = [line.strip() for line in fd]
 
         # fetch documents
+        logger.info(f"Downloading {len(sample_base_tags)} documents files.")
         documents_files = dl_manager.download({
-            "head_middle": [
-                f"sample/documents/{lst}.json.gz" for lst in listings
-            ]
+            base_tag: f"sample/documents/{base_tag}.json.gz"
+            for base_tag in sample_base_tags
         })
 
         # fetch quality signals
+        logger.info(f"Downloading {len(sample_base_tags)} quality signals files.")
         quality_signals_files = dl_manager.download({
-            "head_middle": [
-                f"sample/quality_signals/{lst}.signals.json.gz"
-                for lst in listings
-            ]
+            base_tag: f"sample/quality_signals/{base_tag}.signals.json.gz"
+            for base_tag in sample_base_tags
+        })
+
+        # fetch ids of duplicates
+        logger.info(f"Downloading {len(sample_base_tags)} duplicates ids files.")
+        duplicates_ids_files = dl_manager.download({
+            base_tag: f"sample/duplicates/{base_tag}.duplicates.parquet"
+            for base_tag in sample_base_tags
         })
 
         return [
             datasets.SplitGenerator(
                 name=datasets.Split.TRAIN,
                 gen_kwargs={
-                    "listings_ids": {"head_middle": listings},
+                    "base_tags": sample_base_tags,
                     "documents_files": documents_files,
-                    "quality_signals_files": quality_signals_files
+                    "quality_signals_files": quality_signals_files,
+                    "duplicates_ids_files": duplicates_ids_files
                 }
             )
         ]
@@ -204,66 +213,75 @@ class RedPajamaV2(datasets.GeneratorBasedBuilder):
         languages = getattr(self.config, 'languages', _LANGUAGES)
         partition = getattr(self.config, 'partition', 'all')
 
-        partitions = {
-            "all": ["head_middle", "tail"]
-        }.get(partition, [partition])
-
-        # nested structure: partition -> urls
-        listings_files_urls = {}
-        for part in partitions:
-            listings_files_urls[part] = []
-            for snapshot_id in snapshots:
-                for lang in languages:
-                    listings_files_urls[part].append(
-                        _LISTINGS_PATTERN.format(
-                            language=lang,
-                            snapshot=snapshot_id,
-                            partition=part,
-                        )
-                    )
-
-        # fetch listings from hub
-        listings_files = dl_manager.download_and_extract(listings_files_urls)
-
-        # fetch listings
-        listings_ids = {}
-        for part, part_listings_files in listings_files.items():
-            listings_ids[part] = []
-            for listings_file in part_listings_files:
-                with open(listings_file, encoding="utf-8") as f:
-                    listings_ids[part].extend([
-                        line.strip() for line in f
-                    ])
-
-        # build urls pointing to documents and quality signals
-        document_urls = {}
+        if partition == 'all':
+            partitions = ['head', 'middle', 'tail']
+        elif partition == 'head_middle':
+            partitions = ['head', 'middle']
+        elif partition == 'tail':
+            partitions = [partition]
+        else:
+            raise ValueError(f'invalid partition: {partition}')
+
+        # fetch list of missing files (e.g., missing duplicates or corrupted documents and
+        # quality signal files)
+        missing_files_paths = dl_manager.download_and_extract({
+            component: _MISSING_FILES_PATTERN.format(component=component)
+            for component in ("documents", "signals", "duplicates")
+        })
+
+        missing_files = {}
+        for component, missing_file in missing_files_paths.items():
+            with open(missing_file) as f:
+                missing_files[component] = set(line.strip() for line in f)
+
+        # build list of urls to fetch
+        documents_urls = {}
         quality_signals_urls = {}
-        for part, part_listings_ids in listings_ids.items():
-            document_urls[part] = []
-            quality_signals_urls[part] = []
-            for lst_id in part_listings_ids:
-                document_urls[part].append(
-                    os.path.join(_URL_BASE, f"documents/{lst_id}.json.gz")
-                )
-                if part != "head_middle":
-                    continue
-
-                quality_signals_urls[part].append(
-                    os.path.join(
-                        _URL_BASE, f"quality_signals/{lst_id}.signals.json.gz"
-                    )
-                )
-
-        documents_files = dl_manager.download(document_urls)
+        duplicates_ids_urls = {}
+        base_tags = []
+
+        for lang in languages:
+            for snapshot in snapshots:
+                for part in partitions:
+                    for n in range(_NUM_SHARDS):
+                        base_tag = f"{snapshot}/{n:04d}/{lang}_{part}"
+                        base_tags.append(base_tag)
+
+                        # documents
+                        url = f"{_URL_BASE}/documents/{base_tag}.json.gz"
+                        if url not in missing_files["documents"]:
+                            documents_urls[base_tag] = url
+
+                        # quality signals
+                        url = f"{_URL_BASE}/quality_signals/{base_tag}.signals.json.gz"
+                        if url not in missing_files["signals"]:
+                            quality_signals_urls[base_tag] = url
+
+                        # duplicates
+                        url = f"{_URL_BASE}/duplicates/{base_tag}.duplicates.parquet"
+                        if url not in missing_files["duplicates"]:
+                            duplicates_ids_urls[base_tag] = url
+
+        # download documents files
+        logger.info(f"Downloading {len(documents_urls)} documents files.")
+        documents_files = dl_manager.download(documents_urls)
+
+        # download quality signals files
+        logger.info(f"Downloading {len(quality_signals_urls)} quality signals files.")
         quality_signals_files = dl_manager.download(quality_signals_urls)
 
+        # download duplicates ids files
+        logger.info(f"Downloading {len(duplicates_ids_urls)} duplicates ids files.")
+        duplicates_ids_files = dl_manager.download(duplicates_ids_urls)
+
         return [
             datasets.SplitGenerator(
                 name=datasets.Split.TRAIN,
                 gen_kwargs={
-                    "listings_ids": listings_ids,
+                    "base_tags": base_tags,
                     "documents_files": documents_files,
-                    "quality_signals_files": quality_signals_files
+                    "quality_signals_files": quality_signals_files,
+                    "duplicates_ids_files": duplicates_ids_files
                 }
             )
         ]
@@ -275,71 +293,88 @@ class RedPajamaV2(datasets.GeneratorBasedBuilder):
         return self._split_generators_full(dl_manager)
 
     def _generate_examples(
-            self, listings_ids, documents_files, quality_signals_files
+            self, base_tags, documents_files, quality_signals_files,
+            duplicates_ids_files
     ):
         key = 0
-        for part in documents_files.keys():
-            part_docs_files = documents_files[part]
-            part_qs_files = quality_signals_files[part]
-            part_listings_ids = listings_ids[part]
-
-            if len(part_qs_files) == 0:
-                for sample in self._handle_tail_partition(
-                        part, part_docs_files, part_listings_ids
-                ):
-                    yield key, sample
-                    key += 1
+        for base_tag in base_tags:
+            doc_file = documents_files.get(base_tag)
+            qs_file = quality_signals_files.get(base_tag)
+            dupe_file = duplicates_ids_files.get(base_tag)
+
+            if doc_file is None:
                 continue
 
-            for sample in self._handle_head_middle_partition(
-                    part, part_docs_files, part_qs_files, part_listings_ids
+            for sample in self.__get_generator(
+                    base_tag, doc_file, qs_file, dupe_file
             ):
                 yield key, sample
                 key += 1
 
-    def _handle_tail_partition(self, part, docs_files, listings_ids):
-        for doc_file, listing_id in zip(docs_files, listings_ids):
+    def __get_generator(self, base_tag, doc_file, qs_file, dupe_file):
+        if "_tail" in base_tag:
+            yield from self._handle_tail(base_tag, doc_file, qs_file, dupe_file)
+        else:
+            yield from self._handle_head_middle(base_tag, doc_file, qs_file, dupe_file)
+
+    def _handle_tail(self, base_tag, doc_file, qs_file, dupe_file):
+        try:
             with gzip.open(doc_file, "rt", encoding="utf-8") as df:
                 for row, doc in enumerate(df):
-                    doc_id = f"{listing_id}.json.gz/{row}"
+                    doc_id = f"{base_tag}.json.gz/{row}"
                     try:
-                        yield self.handle_record(part, doc_id, doc, None)
+                        yield self.handle_record("tail", doc_id, doc, None, None)
                     except Exception as e:
-                        print(f'doc_file: {doc_file}')
-                        print(f'row: {row}')
+                        logger.warning(f'failed handling row {row} in {doc_file}')
                         traceback.print_exc()
-                        raise e
+                        continue
 
-    def _handle_head_middle_partition(
-            self, part, docs_files, qs_files, listings_ids
+        except gzip.BadGzipFile as e:
+            # skip broken gzip files
+            print(f'BadGzipFile: {doc_file, qs_file}')
+            traceback.print_exc()
+            return
+
+    def _handle_head_middle(
+            self, base_tag, doc_file, qs_file, dupe_file
     ):
-        assert len(docs_files) == len(qs_files)
-
-        listings_ids = listings_ids[:len(docs_files)]
-
-        for doc_file, qs_file, listings_id in zip(
-                docs_files, qs_files, listings_ids
-        ):
-            try:
-                with gzip.open(doc_file, "rt", encoding="utf-8") as df:
-                    with gzip.open(qs_file, "rt", encoding="utf-8") as qf:
-                        for row, (doc, qs) in enumerate(zip(df, qf)):
-                            doc_id = f"{listings_id}.json.gz/{row}"
-                            try:
-                                yield self.handle_record(part, doc_id, doc, qs)
-                            except Exception as e:
-                                print(f'failed handling row {row} in '
-                                      f'{doc_file} ({qs_file})')
-                                traceback.print_exc()
-                                continue
-            except gzip.BadGzipFile as e:
-                # skip broken gzip files
-                print(f'BadGzipFile: {doc_file, qs_file}')
-                traceback.print_exc()
-                continue
+        if qs_file is None:
+            yield from self._handle_tail(base_tag, doc_file, None, None)
+            return
+
+        # load duplicates
+        try:
+            with open(dupe_file, "rb") as df:
+                duplicates = set(pq.read_table(
+                    df, columns=["doc_id"], use_pandas_metadata=False
+                )["doc_id"].to_pylist())
+        except Exception as e:
+            logger.warning(f'no duplicate ids found for {base_tag}')
+            duplicates = set()
+
+        try:
+            with gzip.open(doc_file, "rt", encoding="utf-8") as df:
+                with gzip.open(qs_file, "rt", encoding="utf-8") as qf:
+                    for row, (doc, qs) in enumerate(zip(df, qf)):
+                        doc_id = f"{base_tag}.json.gz/{row}"
+
+                        try:
+                            yield self.handle_record(
+                                "head_middle", doc_id, doc, qs, is_duplicate=doc_id in duplicates
+                            )
+                        except Exception as e:
+                            logger.warning(f'failed handling row {row} in {doc_file} ({qs_file})')
+                            traceback.print_exc()
+                            continue
+
+        except gzip.BadGzipFile as e:
+            # skip broken gzip files
+            print(f'BadGzipFile: {doc_file, qs_file}')
+            traceback.print_exc()
+            return
 
     @staticmethod
-    def handle_record(part, doc_id, doc, qs):
+    def handle_record(part, doc_id, doc, qs, is_duplicate=None):
         doc = json.loads(doc)
         qs = json.loads(qs) if qs is not None else {}
 
@@ -352,11 +387,12 @@ class RedPajamaV2(datasets.GeneratorBasedBuilder):
             "digest": doc["digest"],
         }
 
-        quality_signals = json.dumps(qs.get("quality_signals", {}))
+        quality_signals = qs.get("quality_signals", {})
+        quality_signals["is_duplicate"] = is_duplicate
 
         return {
             "raw_content": doc["raw_content"],
             "doc_id": doc_id,
             "meta": json.dumps(meta),
-            "quality_signals": quality_signals,
+            "quality_signals": json.dumps(quality_signals),
         }

urls/missing-documents.txt

@@ -0,0 +1,8 @@
+https://data.together.xyz/redpajama-data-v2/v1.0.0/documents/2014-52/2811/en_head.json.gz
+https://data.together.xyz/redpajama-data-v2/v1.0.0/documents/2014-52/3215/en_middle.json.gz
+https://data.together.xyz/redpajama-data-v2/v1.0.0/documents/2014-52/4251/en_head.json.gz
+https://data.together.xyz/redpajama-data-v2/v1.0.0/documents/2015-40/0914/it_head.json.gz
+https://data.together.xyz/redpajama-data-v2/v1.0.0/documents/2015-40/0964/it_head.json.gz
+https://data.together.xyz/redpajama-data-v2/v1.0.0/documents/2015-40/1315/it_head.json.gz
+https://data.together.xyz/redpajama-data-v2/v1.0.0/documents/2015-40/2650/it_head.json.gz
+https://data.together.xyz/redpajama-data-v2/v1.0.0/documents/2017-04/4965/it_middle.json.gz

urls/missing-duplicates.txt

@@ -0,0 +1,324 @@
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-15/3397/en_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-15/4248/en_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-23/3652/en_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-35/2797/en_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-35/3141/en_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-42/0301/en_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-42/0477/en_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-42/4119/en_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-49/0242/en_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-49/0361/de_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-49/0376/it_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/0646/it_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/1940/es_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/2697/fr_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/2811/en_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3134/en_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3215/en_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3261/it_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3261/it_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3262/it_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3292/es_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3293/it_head.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3324/it_head.duplicates.parquet
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+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3444/it_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3449/it_middle.duplicates.parquet
+https://data.together.xyz/redpajama-data-v2/v1.0.0/duplicates/2014-52/3566/it_head.duplicates.parquet
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