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lint poller
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This commit is contained in:
Paul Walko
2025-12-12 18:43:36 +01:00
parent ae73ecf68b
commit d7dd7a98fe
6 changed files with 222 additions and 330 deletions
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16
.gitea/workflows/build-push-poller.yaml
View File

@@ -8,8 +8,24 @@ on:
- 'poller/**' - 'poller/**'
jobs: jobs:
lint:
runs-on: ubuntu-latest
steps:
- name: Checkout
uses: actions/checkout@v4
- name: Install uv
uses: astral-sh/setup-uv@v4
- name: Set up Python
run: uv python install 3.13
- name: Run lint
run: cd poller && make lint
build: build:
runs-on: ubuntu-latest runs-on: ubuntu-latest
needs: lint
steps: steps:
- name: Checkout - name: Checkout
uses: actions/checkout@v4 uses: actions/checkout@v4

22
9030_docker.sh
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@@ -1,22 +0,0 @@
#!/bin/bash
set -e
up () {
docker run \
--detach \
--name cp2-pg \
--restart unless-stopped \
--env-file $HOME/scripts-private/loser/cavepedia-v2/cp2-pg.env \
--volume /texas/cp2/cp2-pg/18/data:/var/lib/postgresql/18/docker:rw \
--publish [::1]:9030:5432 \
--network pew-net \
pgvector/pgvector:pg18
}
down () {
docker stop cp2-pg || true
docker rm cp2-pg || true
}
$@

11
poller/Makefile Normal file
View File

@@ -0,0 +1,11 @@
.PHONY: lint lint-fix
FIX ?=
lint:
uv run --extra dev ruff check $(if $(FIX),--fix,) .
uv run --extra dev ruff format $(if $(FIX),,--check) .
uv run --extra dev mypy .
lint-fix:
$(MAKE) lint FIX=1

267
poller/main.py
View File

@@ -1,21 +1,18 @@
from cohere.core.api_error import ApiError import io
from pgvector.psycopg import register_vector, Bit import logging
from psycopg.rows import dict_row import os
import time
from urllib.parse import unquote from urllib.parse import unquote
from pypdf import PdfReader, PdfWriter
import anthropic import anthropic
import boto3 import boto3
import cohere import cohere
import dotenv import dotenv
import datetime
import io
import json
import minio
import numpy as np
import os
import psycopg import psycopg
import time from cohere.core.api_error import ApiError
import logging from pgvector.psycopg import register_vector
from psycopg.rows import dict_row
from pypdf import PdfReader, PdfWriter
from pythonjsonlogger.json import JsonFormatter from pythonjsonlogger.json import JsonFormatter
logger = logging.getLogger(__name__) logger = logging.getLogger(__name__)
@@ -31,21 +28,21 @@ logger.addHandler(logHandler)
dotenv.load_dotenv() dotenv.load_dotenv()
# Required environment variables # Required environment variables
COHERE_API_KEY = os.environ['COHERE_API_KEY'] COHERE_API_KEY = os.environ["COHERE_API_KEY"]
S3_ACCESS_KEY = os.environ['S3_ACCESS_KEY'] S3_ACCESS_KEY = os.environ["S3_ACCESS_KEY"]
S3_SECRET_KEY = os.environ['S3_SECRET_KEY'] S3_SECRET_KEY = os.environ["S3_SECRET_KEY"]
S3_ENDPOINT = os.environ.get('S3_ENDPOINT', 'https://s3.bigcavemaps.com') S3_ENDPOINT = os.environ.get("S3_ENDPOINT", "https://s3.bigcavemaps.com")
S3_REGION = os.environ.get('S3_REGION', 'eu') S3_REGION = os.environ.get("S3_REGION", "eu")
# Database config # Database config
DB_HOST = os.environ.get('DB_HOST', 'localhost') DB_HOST = os.environ.get("DB_HOST", "localhost")
DB_PORT = int(os.environ.get('DB_PORT', '5432')) DB_PORT = int(os.environ.get("DB_PORT", "5432"))
DB_NAME = os.environ.get('DB_NAME', 'cavepediav2_db') DB_NAME = os.environ.get("DB_NAME", "cavepediav2_db")
DB_USER = os.environ.get('DB_USER', 'cavepediav2_user') DB_USER = os.environ.get("DB_USER", "cavepediav2_user")
DB_PASSWORD = os.environ['DB_PASSWORD'] DB_PASSWORD = os.environ["DB_PASSWORD"]
s3 = boto3.client( s3 = boto3.client(
's3', "s3",
aws_access_key_id=S3_ACCESS_KEY, aws_access_key_id=S3_ACCESS_KEY,
aws_secret_access_key=S3_SECRET_KEY, aws_secret_access_key=S3_SECRET_KEY,
endpoint_url=S3_ENDPOINT, endpoint_url=S3_ENDPOINT,
@@ -61,6 +58,7 @@ conn = psycopg.connect(
row_factory=dict_row, row_factory=dict_row,
) )
## init ## init
# events table is created by minio up creation of event destination # events table is created by minio up creation of event destination
def create_tables(): def create_tables():
@@ -94,54 +92,58 @@ def create_tables():
embedding vector(1536), embedding vector(1536),
UNIQUE(bucket, key) UNIQUE(bucket, key)
) )
""") """,
)
for command in commands: for command in commands:
conn.execute(command) conn.execute(command)
conn.commit() conn.commit()
register_vector(conn) register_vector(conn)
def import_files(): def import_files():
"""Scan import bucket for any new files; move them to the files bucket and add to db; delete from import bucket""" """Scan import bucket for any new files; move them to the files bucket and add to db; delete from import bucket"""
BUCKET_IMPORT = 'cavepediav2-import' BUCKET_IMPORT = "cavepediav2-import"
BUCKET_FILES = 'cavepediav2-files' BUCKET_FILES = "cavepediav2-files"
# get new files; add to db, sync to main bucket; delete from import bucket # get new files; add to db, sync to main bucket; delete from import bucket
response = s3.list_objects_v2(Bucket=BUCKET_IMPORT) response = s3.list_objects_v2(Bucket=BUCKET_IMPORT)
if 'Contents' in response: if "Contents" in response:
for obj in response['Contents']: for obj in response["Contents"]:
if obj['Key'].endswith('/'): if obj["Key"].endswith("/"):
continue continue
s3.copy_object( s3.copy_object(
CopySource={'Bucket': BUCKET_IMPORT, 'Key': obj['Key']}, CopySource={"Bucket": BUCKET_IMPORT, "Key": obj["Key"]},
Bucket=BUCKET_FILES, Bucket=BUCKET_FILES,
Key=obj['Key'], Key=obj["Key"],
) )
conn.execute('INSERT INTO metadata (bucket, key) VALUES(%s, %s);', (BUCKET_FILES, obj['Key'])) conn.execute("INSERT INTO metadata (bucket, key) VALUES(%s, %s);", (BUCKET_FILES, obj["Key"]))
conn.commit() conn.commit()
s3.delete_object( s3.delete_object(
Bucket=BUCKET_IMPORT, Bucket=BUCKET_IMPORT,
Key=obj['Key'], Key=obj["Key"],
) )
def split_files(): def split_files():
"""Split PDFs into single pages for easier processing""" """Split PDFs into single pages for easier processing"""
BUCKET_PAGES = 'cavepediav2-pages' BUCKET_PAGES = "cavepediav2-pages"
rows = conn.execute("SELECT COUNT(*) FROM metadata WHERE split = false") rows = conn.execute("SELECT COUNT(*) FROM metadata WHERE split = false")
row = rows.fetchone() row = rows.fetchone()
logger.info(f'Found {row["count"]} files to split.') assert row is not None
rows = conn.execute('SELECT * FROM metadata WHERE split = false') logger.info(f"Found {row['count']} files to split.")
rows = conn.execute("SELECT * FROM metadata WHERE split = false")
for row in rows: for row in rows:
bucket = row['bucket'] bucket = row["bucket"]
key = row['key'] key = row["key"]
with conn.cursor() as cur: with conn.cursor() as cur:
logger.info(f'SPLITTING bucket: {bucket}, key: {key}') logger.info(f"SPLITTING bucket: {bucket}, key: {key}")
##### get pdf ##### ##### get pdf #####
s3.download_file(bucket, key, '/tmp/file.pdf') s3.download_file(bucket, key, "/tmp/file.pdf")
##### split ##### ##### split #####
with open('/tmp/file.pdf', 'rb') as f: with open("/tmp/file.pdf", "rb") as f:
reader = PdfReader(f) reader = PdfReader(f)
for i in range(len(reader.pages)): for i in range(len(reader.pages)):
@@ -151,129 +153,120 @@ def split_files():
with io.BytesIO() as bs: with io.BytesIO() as bs:
writer.write(bs) writer.write(bs)
bs.seek(0) bs.seek(0)
s3.put_object( s3.put_object(Bucket=BUCKET_PAGES, Key=f"{key}/page-{i + 1}.pdf", Body=bs.getvalue())
Bucket=BUCKET_PAGES, page_key = f"{key}/page-{i + 1}.pdf"
Key=f'{key}/page-{i + 1}.pdf', role = key.split("/")[0]
Body=bs.getvalue() cur.execute(
) "INSERT INTO embeddings (bucket, key, role) VALUES (%s, %s, %s);",
cur.execute('INSERT INTO embeddings (bucket, key, role) VALUES (%s, %s, %s);', (BUCKET_PAGES, f'{key}/page-{i + 1}.pdf', key.split('/')[0])) (BUCKET_PAGES, page_key, role),
cur.execute('UPDATE metadata SET SPLIT = true WHERE id = %s', (row['id'],)); )
cur.execute("UPDATE metadata SET SPLIT = true WHERE id = %s", (row["id"],))
conn.commit() conn.commit()
def ocr_create_message(id, bucket, key): def ocr_create_message(id, bucket, key):
"""Create message to send to claude""" """Create message to send to claude"""
url = s3.generate_presigned_url( url = s3.generate_presigned_url(
'get_object', "get_object",
Params={ Params={"Bucket": bucket, "Key": unquote(key)},
'Bucket': bucket,
'Key': unquote(key)
},
) )
message = { message = {
'custom_id': f'doc-{id}', "custom_id": f"doc-{id}",
'params': { "params": {
'model': 'claude-haiku-4-5', "model": "claude-haiku-4-5",
'max_tokens': 4000, "max_tokens": 4000,
'temperature': 1, "temperature": 1,
'messages': [ "messages": [
{ {
'role': 'user', "role": "user",
'content': [ "content": [
{"type": "document", "source": {"type": "url", "url": url}},
{ {
'type': 'document', "type": "text",
'source': { "text": "Extract all text from this document. "
'type': 'url', "Do not include any summary or conclusions of your own.",
'url': url
}
}, },
{ ],
'type': 'text',
'text': 'Extract all text from this document. Do not include any summary or conclusions of your own.'
}
]
} }
] ],
} },
} }
return message return message
def ocr(bucket, key): def ocr(bucket, key):
"""Gets OCR content of pdfs""" """Gets OCR content of pdfs"""
url = s3.generate_presigned_url( url = s3.generate_presigned_url(
'get_object', "get_object",
Params={ Params={"Bucket": bucket, "Key": unquote(key)},
'Bucket': bucket,
'Key': unquote(key)
},
) )
client = anthropic.Anthropic() client = anthropic.Anthropic()
message = client.messages.create( message = client.messages.create(
model='claude-haiku-4-5', model="claude-haiku-4-5",
max_tokens=4000, max_tokens=4000,
temperature=1, temperature=1,
messages=[ messages=[
{ {
'role': 'user', "role": "user",
'content': [ "content": [
{"type": "document", "source": {"type": "url", "url": url}},
{ {
'type': 'document', "type": "text",
'source': { "text": "Extract all text from this document. "
'type': 'url', "Do not include any summary or conclusions of your own.",
'url': url
}
}, },
{ ],
'type': 'text',
'text': 'Extract all text from this document. Do not include any summary or conclusions of your own.'
}
]
} }
], ],
) )
return message return message
def claude_send_batch(batch): def claude_send_batch(batch):
"""Send a batch to claude""" """Send a batch to claude"""
client = anthropic.Anthropic() client = anthropic.Anthropic()
message_batch = client.messages.batches.create( message_batch = client.messages.batches.create(requests=batch)
requests=batch
)
conn.execute('INSERT INTO batches (platform, batch_id, type) VALUES(%s, %s, %s);', ('claude', message_batch.id, 'ocr')) conn.execute(
"INSERT INTO batches (platform, batch_id, type) VALUES(%s, %s, %s);", ("claude", message_batch.id, "ocr")
)
conn.commit() conn.commit()
logger.info(f'Sent batch_id {message_batch.id} to claude') logger.info(f"Sent batch_id {message_batch.id} to claude")
def check_batches(): def check_batches():
"""Check batch status""" """Check batch status"""
rows = conn.execute("SELECT COUNT(*) FROM batches WHERE done = false") rows = conn.execute("SELECT COUNT(*) FROM batches WHERE done = false")
row = rows.fetchone() row = rows.fetchone()
logger.info(f'Found {row["count"]} batch(es) to process.') assert row is not None
logger.info(f"Found {row['count']} batch(es) to process.")
rows = conn.execute("SELECT * FROM batches WHERE done = false") rows = conn.execute("SELECT * FROM batches WHERE done = false")
client = anthropic.Anthropic() client = anthropic.Anthropic()
for row in rows: for row in rows:
message_batch = client.messages.batches.retrieve( message_batch = client.messages.batches.retrieve(
row['batch_id'], row["batch_id"],
) )
if message_batch.processing_status == 'ended': if message_batch.processing_status == "ended":
results = client.messages.batches.results( results = client.messages.batches.results(
row['batch_id'], row["batch_id"],
) )
with conn.cursor() as cur: with conn.cursor() as cur:
for result in results: for result in results:
id = int(result.custom_id.split('-')[1]) id = int(result.custom_id.split("-")[1])
try: try:
content = result.result.message.content[0].text content = result.result.message.content[0].text # type: ignore[union-attr]
cur.execute('UPDATE embeddings SET content = %s WHERE id = %s;', (content, id)) cur.execute("UPDATE embeddings SET content = %s WHERE id = %s;", (content, id))
except: except Exception:
cur.execute('UPDATE embeddings SET content = %s WHERE id = %s;', ('ERROR', id)) cur.execute("UPDATE embeddings SET content = %s WHERE id = %s;", ("ERROR", id))
cur.execute('UPDATE batches SET done = true WHERE batch_id = %s;', (row['batch_id'],)) cur.execute("UPDATE batches SET done = true WHERE batch_id = %s;", (row["batch_id"],))
conn.commit() conn.commit()
def ocr_main(): def ocr_main():
"""Checks for any non-OCR'd documents and sends them to claude in batches""" """Checks for any non-OCR'd documents and sends them to claude in batches"""
## claude 4 sonnet ## ## claude 4 sonnet ##
@@ -284,37 +277,49 @@ def ocr_main():
# get docs where content is null # get docs where content is null
rows = conn.execute("SELECT COUNT(*) FROM embeddings WHERE content IS NULL LIMIT 1000") rows = conn.execute("SELECT COUNT(*) FROM embeddings WHERE content IS NULL LIMIT 1000")
row = rows.fetchone() row = rows.fetchone()
logger.info(f'Batching {row["count"]} documents to generate OCR content.') assert row is not None
logger.info(f"Batching {row['count']} documents to generate OCR content.")
rows = conn.execute("SELECT * FROM embeddings WHERE content IS NULL LIMIT 1000") rows = conn.execute("SELECT * FROM embeddings WHERE content IS NULL LIMIT 1000")
# batch docs; set content = WIP # batch docs; set content = WIP
batch = [] batch = []
for row in rows: for row in rows:
id = row['id'] id = row["id"]
bucket = row['bucket'] bucket = row["bucket"]
key = row['key'] key = row["key"]
logger.info(f'Batching for OCR: {bucket}, key: {key}') logger.info(f"Batching for OCR: {bucket}, key: {key}")
batch.append(ocr_create_message(id, bucket, key)) batch.append(ocr_create_message(id, bucket, key))
conn.execute('UPDATE embeddings SET content = %s WHERE id = %s;', ('WIP', id)) conn.execute("UPDATE embeddings SET content = %s WHERE id = %s;", ("WIP", id))
conn.commit() conn.commit()
if len(batch) > 0: if len(batch) > 0:
claude_send_batch(batch) claude_send_batch(batch)
def embeddings_main(): def embeddings_main():
"""Generate embeddings""" """Generate embeddings"""
rows = conn.execute("SELECT COUNT(*) FROM embeddings WHERE content IS NOT NULL AND content != 'ERROR' AND content != 'WIP' AND embedding IS NULL") count_query = """
SELECT COUNT(*) FROM embeddings
WHERE content IS NOT NULL AND content != 'ERROR' AND content != 'WIP' AND embedding IS NULL
"""
rows = conn.execute(count_query)
row = rows.fetchone() row = rows.fetchone()
logger.info(f'Batching {row["count"]} documents to generate embeddings.') assert row is not None
rows = conn.execute("SELECT id, key, bucket, content FROM embeddings WHERE content IS NOT NULL AND content != 'ERROR' AND content != 'WIP' AND embedding IS NULL") logger.info(f"Batching {row['count']} documents to generate embeddings.")
select_query = """
SELECT id, key, bucket, content FROM embeddings
WHERE content IS NOT NULL AND content != 'ERROR' AND content != 'WIP' AND embedding IS NULL
"""
rows = conn.execute(select_query)
for row in rows: for row in rows:
logger.info(f'Generating embeddings for id: {row["id"]}, bucket: {row["bucket"]}, key: {row["key"]}') logger.info(f"Generating embeddings for id: {row['id']}, bucket: {row['bucket']}, key: {row['key']}")
embedding = embed(row['content'], 'search_document') embedding = embed(row["content"], "search_document")
conn.execute('UPDATE embeddings SET embedding = %s::vector WHERE id = %s;', (embedding, row['id'])) conn.execute("UPDATE embeddings SET embedding = %s::vector WHERE id = %s;", (embedding, row["id"]))
conn.commit() conn.commit()
### embeddings ### embeddings
def embed(text, input_type): def embed(text, input_type):
max_retries = 3 max_retries = 3
@@ -322,27 +327,31 @@ def embed(text, input_type):
try: try:
resp = co.embed( resp = co.embed(
texts=[text], texts=[text],
model='embed-v4.0', model="embed-v4.0",
input_type=input_type, input_type=input_type,
embedding_types=['float'], embedding_types=["float"],
output_dimension=1536, output_dimension=1536,
) )
return resp.embeddings.float[0] assert resp.embeddings.float_ is not None
return resp.embeddings.float_[0]
except ApiError as e: except ApiError as e:
if e.status_code == 502 and attempt < max_retries - 1: if e.status_code == 502 and attempt < max_retries - 1:
time.sleep(30 ** attempt) # exponential backoff time.sleep(30**attempt) # exponential backoff
continue continue
raise Exception('cohere max retries exceeded') raise Exception("cohere max retries exceeded")
def fix_pages(): def fix_pages():
i = 766 i = 766
while i > 0: while i > 0:
conn.execute('UPDATE embeddings SET key = %s WHERE key = %s', (f'public/va/caves-of-virginia.pdf/page-{i}.pdf', f'public/va/caves-of-virginia.pdf/page-{i-1}.pdf')) new_key = f"public/va/caves-of-virginia.pdf/page-{i}.pdf"
old_key = f"public/va/caves-of-virginia.pdf/page-{i - 1}.pdf"
conn.execute("UPDATE embeddings SET key = %s WHERE key = %s", (new_key, old_key))
conn.commit() conn.commit()
i -= 1 i -= 1
if __name__ == '__main__': if __name__ == "__main__":
create_tables() create_tables()
while True: while True:
@@ -352,5 +361,5 @@ if __name__ == '__main__':
ocr_main() ocr_main()
embeddings_main() embeddings_main()
logger.info('sleeping 5 minutes') logger.info("sleeping 5 minutes")
time.sleep(5 * 60) time.sleep(5 * 60)

20
poller/pyproject.toml
View File

@@ -8,11 +8,29 @@ dependencies = [
"anthropic>=0.52.0", "anthropic>=0.52.0",
"boto3>=1.42.4", "boto3>=1.42.4",
"cohere>=5.15.0", "cohere>=5.15.0",
"mypy>=1.15.0",
"pgvector>=0.4.1", "pgvector>=0.4.1",
"psycopg[binary]>=3.2.9", "psycopg[binary]>=3.2.9",
"pypdf>=5.5.0", "pypdf>=5.5.0",
"python-dotenv>=1.1.0", "python-dotenv>=1.1.0",
"python-json-logger>=3.3.0", "python-json-logger>=3.3.0",
]
[project.optional-dependencies]
dev = [
"mypy>=1.15.0",
"ruff>=0.8.0",
"types-psycopg2>=2.9.21.20250516", "types-psycopg2>=2.9.21.20250516",
] ]
[tool.ruff]
target-version = "py313"
line-length = 120
[tool.ruff.lint]
select = ["E", "F", "I", "UP"]
[tool.mypy]
python_version = "3.13"
ignore_missing_imports = true
check_untyped_defs = true

216
poller/uv.lock generated
View File

@@ -1,6 +1,6 @@
version = 1 version = 1
revision = 3 revision = 3
requires-python = ">=3.11" requires-python = ">=3.13"
[[package]] [[package]]
name = "annotated-types" name = "annotated-types"
@@ -36,7 +36,6 @@ source = { registry = "https://pypi.org/simple" }
dependencies = [ dependencies = [
{ name = "idna" }, { name = "idna" },
{ name = "sniffio" }, { name = "sniffio" },
{ name = "typing-extensions", marker = "python_full_version < '3.13'" },
] ]
sdist = { url = "https://files.pythonhosted.org/packages/95/7d/4c1bd541d4dffa1b52bd83fb8527089e097a106fc90b467a7313b105f840/anyio-4.9.0.tar.gz", hash = "sha256:673c0c244e15788651a4ff38710fea9675823028a6f08a5eda409e0c9840a028", size = 190949, upload-time = "2025-03-17T00:02:54.77Z" } sdist = { url = "https://files.pythonhosted.org/packages/95/7d/4c1bd541d4dffa1b52bd83fb8527089e097a106fc90b467a7313b105f840/anyio-4.9.0.tar.gz", hash = "sha256:673c0c244e15788651a4ff38710fea9675823028a6f08a5eda409e0c9840a028", size = 190949, upload-time = "2025-03-17T00:02:54.77Z" }
wheels = [ wheels = [
@@ -86,32 +85,6 @@ version = "3.4.2"
source = { registry = "https://pypi.org/simple" } source = { registry = "https://pypi.org/simple" }
sdist = { url = "https://files.pythonhosted.org/packages/e4/33/89c2ced2b67d1c2a61c19c6751aa8902d46ce3dacb23600a283619f5a12d/charset_normalizer-3.4.2.tar.gz", hash = "sha256:5baececa9ecba31eff645232d59845c07aa030f0c81ee70184a90d35099a0e63", size = 126367, upload-time = "2025-05-02T08:34:42.01Z" } sdist = { url = "https://files.pythonhosted.org/packages/e4/33/89c2ced2b67d1c2a61c19c6751aa8902d46ce3dacb23600a283619f5a12d/charset_normalizer-3.4.2.tar.gz", hash = "sha256:5baececa9ecba31eff645232d59845c07aa030f0c81ee70184a90d35099a0e63", size = 126367, upload-time = "2025-05-02T08:34:42.01Z" }
wheels = [ wheels = [
{ url = "https://files.pythonhosted.org/packages/05/85/4c40d00dcc6284a1c1ad5de5e0996b06f39d8232f1031cd23c2f5c07ee86/charset_normalizer-3.4.2-cp311-cp311-macosx_10_9_universal2.whl", hash = "sha256:be1e352acbe3c78727a16a455126d9ff83ea2dfdcbc83148d2982305a04714c2", size = 198794, upload-time = "2025-05-02T08:32:11.945Z" },
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