fix: clickhouse connect error fix (#958)

Co-authored-by: Magic <magic@B-4TMH9N3X-2120.local>
Co-authored-by: aries_ckt <916701291@qq.com>
This commit is contained in:
magic.chen 2023-12-22 11:44:26 +08:00 committed by GitHub
parent d9065227bd
commit 681a8e2ed5
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26 changed files with 630 additions and 91 deletions

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@ -28,7 +28,6 @@ class ChatWithDbQA(BaseChat):
if self.db_name:
self.database = CFG.LOCAL_DB_MANAGE.get_connect(self.db_name)
self.db_connect = self.database.session
self.tables = self.database.get_table_names()
self.top_k = (

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@ -0,0 +1 @@
self.__BUILD_MANIFEST=function(s,c,a,e,t,d,n,f,k,h,i,b){return{__rewrites:{beforeFiles:[],afterFiles:[],fallback:[]},"/":["static/chunks/29107295-90b90cb30c825230.js",s,c,a,d,n,f,k,"static/chunks/412-b911d4a677c64b70.js","static/chunks/981-ff77d5cc3ab95298.js","static/chunks/pages/index-d1740e3bc6dba7f5.js"],"/_error":["static/chunks/pages/_error-dee72aff9b2e2c12.js"],"/agent":[s,c,e,d,t,n,"static/chunks/pages/agent-92e9dce47267e88d.js"],"/chat":["static/chunks/pages/chat-84fbba4764166684.js"],"/chat/[scene]/[id]":["static/chunks/pages/chat/[scene]/[id]-f665336966e79cc9.js"],"/database":[s,c,a,e,t,f,h,"static/chunks/643-d8f53f40dd3c5b40.js","static/chunks/pages/database-3140f507fe61ccb8.js"],"/knowledge":[i,s,c,e,d,t,n,f,"static/chunks/551-266086fbfa0925ec.js","static/chunks/pages/knowledge-8ada4ce8fa909bf5.js"],"/knowledge/chunk":[e,t,"static/chunks/pages/knowledge/chunk-9f117a5ed799edd3.js"],"/models":[i,s,c,a,b,h,"static/chunks/pages/models-80218c46bc1d8cfa.js"],"/prompt":[s,c,a,b,"static/chunks/837-e6d4d1eb9e057050.js",k,"static/chunks/607-b224c640f6907e4b.js","static/chunks/pages/prompt-7f839dfd56bc4c20.js"],sortedPages:["/","/_app","/_error","/agent","/chat","/chat/[scene]/[id]","/database","/knowledge","/knowledge/chunk","/models","/prompt"]}}("static/chunks/64-91b49d45b9846775.js","static/chunks/479-b20198841f9a6a1e.js","static/chunks/9-bb2c54d5c06ba4bf.js","static/chunks/442-197e6cbc1e54109a.js","static/chunks/813-cce9482e33f2430c.js","static/chunks/553-df5701294eedae07.js","static/chunks/924-ba8e16df4d61ff5c.js","static/chunks/411-d9eba2657c72f766.js","static/chunks/270-2f094a936d056513.js","static/chunks/928-74244889bd7f2699.js","static/chunks/75fc9c18-a784766a129ec5fb.js","static/chunks/947-5980a3ff49069ddd.js"),self.__BUILD_MANIFEST_CB&&self.__BUILD_MANIFEST_CB();

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self.__SSG_MANIFEST=new Set([]);self.__SSG_MANIFEST_CB&&self.__SSG_MANIFEST_CB()

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@ -3,7 +3,7 @@
"""We need to design a base class. That other connector can Write with this"""
from abc import ABC
from typing import Iterable, List, Optional
from typing import Iterable, List, Optional, Any, Dict
class BaseConnect(ABC):
@ -50,7 +50,7 @@ class BaseConnect(ABC):
"""Get database names."""
pass
def get_table_comments(self, db_name):
def get_table_comments(self, db_name: str):
"""Get table comments.
Args:
@ -58,6 +58,33 @@ class BaseConnect(ABC):
"""
pass
def get_table_comment(self, table_name: str) -> Dict:
"""Get table comment.
Args:
table_name (str): table name
Returns:
comment: Dict, which contains text: Optional[str], eg:["text": "comment"]
"""
pass
def get_columns(self, table_name: str) -> List[Dict]:
"""Get columns.
Args:
table_name (str): table name
Returns:
columns: List[Dict], which contains name: str, type: str, default_expression: str, is_in_primary_key: bool, comment: str
eg:[{'name': 'id', 'type': 'int', 'default_expression': '', 'is_in_primary_key': True, 'comment': 'id'}, ...]
"""
pass
def get_column_comments(self, db_name, table_name):
"""Get column comments.
Args:
table_name (_type_): _description_
"""
pass
def run(self, command: str, fetch: str = "all") -> List:
"""Execute sql command.
@ -99,8 +126,13 @@ class BaseConnect(ABC):
"""Get the creation table sql about specified table."""
pass
def get_indexes(self, table_name):
"""Get table indexes about specified table."""
def get_indexes(self, table_name: str) -> List[Dict]:
"""Get table indexes about specified table.
Args:
table_name (str): table name
Returns:
indexes: List[Dict], eg:[{'name': 'idx_key', 'column_names': ['id']}]
"""
pass
@classmethod

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@ -197,6 +197,7 @@ class ConnectConfigDao(BaseDao):
else:
raise ValueError("Cannot get database by name" + db_name)
print(result)
fields = [field[0] for field in result.cursor.description]
row_dict = {}
row_1 = list(result.cursor.fetchall()[0])

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@ -4,7 +4,7 @@ import regex as re
import pandas as pd
from urllib.parse import quote
from urllib.parse import quote_plus as urlquote
from typing import Any, Iterable, List, Optional
from typing import Any, Iterable, List, Optional, Dict
import sqlalchemy
from sqlalchemy import (
MetaData,
@ -227,6 +227,16 @@ class RDBMSDatabase(BaseConnect):
final_str = "\n\n".join(tables)
return final_str
def get_columns(self, table_name: str) -> List[Dict]:
"""Get columns.
Args:
table_name (str): table name
Returns:
columns: List[Dict], which contains name: str, type: str, default_expression: str, is_in_primary_key: bool, comment: str
eg:[{'name': 'id', 'type': 'int', 'default_expression': '', 'is_in_primary_key': True, 'comment': 'id'}, ...]
"""
return self._inspector.get_columns(table_name)
def _get_sample_rows(self, table: Table) -> str:
# build the select command
command = select(table).limit(self._sample_rows_in_table_info)
@ -292,20 +302,21 @@ class RDBMSDatabase(BaseConnect):
query (str): SQL query to run
fetch (str): fetch type
"""
result = []
print(f"Query[{query}]")
if not query:
return []
return result
cursor = self.session.execute(text(query))
if cursor.returns_rows:
if fetch == "all":
result = cursor.fetchall()
elif fetch == "one":
result = cursor.fetchone()[0] # type: ignore
result = [cursor.fetchone()]
else:
raise ValueError("Fetch parameter must be either 'one' or 'all'")
field_names = tuple(i[0:] for i in cursor.keys())
result = list(result)
result.insert(0, field_names)
return result
@ -474,12 +485,14 @@ class RDBMSDatabase(BaseConnect):
return token.get_real_name()
return None
def get_indexes(self, table_name):
"""Get table indexes about specified table."""
session = self._db_sessions()
cursor = session.execute(text(f"SHOW INDEXES FROM {table_name}"))
indexes = cursor.fetchall()
return [(index[2], index[4]) for index in indexes]
def get_indexes(self, table_name: str) -> List[Dict]:
"""Get table indexes about specified table.
Args:
table_name:(str) table name
Returns:
List[Dict]:eg:[{'name': 'idx_key', 'column_names': ['id']}]
"""
return self._inspector.get_indexes(table_name)
def get_show_create_table(self, table_name):
"""Get table show create table about specified table."""
@ -535,10 +548,11 @@ class RDBMSDatabase(BaseConnect):
except Exception as e:
return []
def get_table_comments(self, db_name):
def get_table_comments(self, db_name: str):
cursor = self.session.execute(
text(
f"""SELECT table_name, table_comment FROM information_schema.tables WHERE table_schema = '{db_name}'""".format(
f"""SELECT table_name, table_comment FROM information_schema.tables
WHERE table_schema = '{db_name}'""".format(
db_name
)
)
@ -548,6 +562,31 @@ class RDBMSDatabase(BaseConnect):
(table_comment[0], table_comment[1]) for table_comment in table_comments
]
def get_table_comment(self, table_name: str) -> Dict:
"""Get table comments.
Args:
table_name (str): table name
Returns:
comment: Dict, which contains text: Optional[str], eg:["text": "comment"]
"""
return self._inspector.get_table_comment(table_name)
def get_column_comments(self, db_name, table_name):
cursor = self.session.execute(
text(
f"""SELECT column_name, column_comment FROM information_schema.columns
WHERE table_schema = '{db_name}' and table_name = '{table_name}'
""".format(
db_name, table_name
)
)
)
column_comments = cursor.fetchall()
return [
(column_comment[0], column_comment[1]) for column_comment in column_comments
]
def get_database_list(self):
session = self._db_sessions()
cursor = session.execute(text(" show databases;"))

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@ -1,10 +1,17 @@
import re
from typing import Optional, Any
import sqlparse
import clickhouse_connect
from typing import List, Optional, Any, Iterable, Dict
from sqlalchemy import text
from urllib.parse import quote
from sqlalchemy.schema import CreateTable
from urllib.parse import quote_plus as urlquote
from dbgpt.datasource.rdbms.base import RDBMSDatabase
from clickhouse_connect.driver import httputil
from dbgpt.storage.schema import DBType
from sqlalchemy import (
MetaData,
)
class ClickhouseConnect(RDBMSDatabase):
@ -20,6 +27,24 @@ class ClickhouseConnect(RDBMSDatabase):
"""db dialect"""
db_dialect: str = "clickhouse"
client: Any = None
def __init__(self, client, **kwargs):
self.client = client
self._all_tables = set()
self.view_support = False
self._usable_tables = set()
self._include_tables = set()
self._ignore_tables = set()
self._custom_table_info = set()
self._indexes_in_table_info = set()
self._usable_tables = set()
self._usable_tables = set()
self._sample_rows_in_table_info = set()
self._metadata = MetaData()
@classmethod
def from_uri_db(
cls,
@ -31,21 +56,75 @@ class ClickhouseConnect(RDBMSDatabase):
engine_args: Optional[dict] = None,
**kwargs: Any,
) -> RDBMSDatabase:
db_url: str = (
f"{cls.driver}://{quote(user)}:{urlquote(pwd)}@{host}:{str(port)}/{db_name}"
big_pool_mgr = httputil.get_pool_manager(maxsize=16, num_pools=12)
client = clickhouse_connect.get_client(
host=host,
user=user,
password=pwd,
port=port,
connect_timeout=15,
database=db_name,
settings={"distributed_ddl_task_timeout": 300},
pool_mgr=big_pool_mgr,
)
return cls.from_uri(db_url, engine_args, **kwargs)
def get_indexes(self, table_name):
"""Get table indexes about specified table."""
return ""
cls.client = client
return cls(client, **kwargs)
@property
def dialect(self) -> str:
"""Return string representation of dialect to use."""
pass
def get_table_names(self):
"""Get all table names."""
session = self.client
with session.query_row_block_stream("SHOW TABLES") as stream:
tables = [row[0] for block in stream for row in block]
return tables
def get_indexes(self, table_name: str) -> List[Dict]:
"""Get table indexes about specified table.
Args:
table_name (str): table name
Returns:
indexes: List[Dict], eg:[{'name': 'idx_key', 'column_names': ['id']}]
"""
session = self.client
_query_sql = f"""
SELECT name AS table, primary_key, from system.tables where database ='{self.client.database}' and table = '{table_name}'
"""
with session.query_row_block_stream(_query_sql) as stream:
indexes = [block for block in stream]
return [
{"name": "primary_key", "column_names": column_names.split(",")}
for table, column_names in indexes[0]
]
@property
def table_info(self) -> str:
return self.get_table_info()
def get_table_info(self, table_names: Optional[List[str]] = None) -> str:
"""Get information about specified tables.
Follows best practices as specified in: Rajkumar et al, 2022
(https://arxiv.org/abs/2204.00498)
If `sample_rows_in_table_info`, the specified number of sample rows will be
appended to each table description. This can increase performance as
demonstrated in the paper.
"""
# TODO:
pass
def get_show_create_table(self, table_name):
"""Get table show create table about specified table."""
session = self._db_sessions()
cursor = session.execute(text(f"SHOW CREATE TABLE {table_name}"))
ans = cursor.fetchall()
ans = ans[0][0]
result = self.client.command(text(f"SHOW CREATE TABLE {table_name}"))
ans = result
ans = re.sub(r"\s*ENGINE\s*=\s*MergeTree\s*", " ", ans, flags=re.IGNORECASE)
ans = re.sub(
r"\s*DEFAULT\s*CHARSET\s*=\s*\w+\s*", " ", ans, flags=re.IGNORECASE
@ -53,18 +132,32 @@ class ClickhouseConnect(RDBMSDatabase):
ans = re.sub(r"\s*SETTINGS\s*\s*\w+\s*", " ", ans, flags=re.IGNORECASE)
return ans
def get_columns(self, table_name: str) -> List[Dict]:
"""Get columns.
Args:
table_name (str): str
Returns:
columns: List[Dict], which contains name: str, type: str, default_expression: str, is_in_primary_key: bool, comment: str
eg:[{'name': 'id', 'type': 'UInt64', 'default_expression': '', 'is_in_primary_key': True, 'comment': 'id'}, ...]
"""
fields = self.get_fields(table_name)
return [
{"name": name, "comment": comment, "type": column_type}
for name, column_type, _, _, comment in fields[0]
]
def get_fields(self, table_name):
"""Get column fields about specified table."""
session = self._db_sessions()
cursor = session.execute(
text(
f"SELECT name, type, default_expression, is_in_primary_key, comment from system.columns where table='{table_name}'".format(
table_name
)
)
session = self.client
_query_sql = f"""
SELECT name, type, default_expression, is_in_primary_key, comment from system.columns where table='{table_name}'
""".format(
table_name
)
fields = cursor.fetchall()
return [(field[0], field[1], field[2], field[3], field[4]) for field in fields]
with session.query_row_block_stream(_query_sql) as stream:
fields = [block for block in stream]
return fields
def get_users(self):
return []
@ -80,31 +173,187 @@ class ClickhouseConnect(RDBMSDatabase):
return "UTF-8"
def get_database_list(self):
return []
session = self.client
with session.command("SHOW DATABASES") as stream:
databases = [
row[0]
for block in stream
for row in block
if row[0]
not in ("INFORMATION_SCHEMA", "system", "default", "information_schema")
]
return databases
def get_database_names(self):
return []
return self.get_database_list()
def get_table_comments(self, db_name):
session = self._db_sessions()
cursor = session.execute(
text(
f"""SELECT table, comment FROM system.tables WHERE database = '{db_name}'""".format(
db_name
)
)
def run(self, command: str, fetch: str = "all") -> List:
# TODO need to be implemented
print("SQL:" + command)
if not command or len(command) < 0:
return []
_, ttype, sql_type, table_name = self.__sql_parse(command)
if ttype == sqlparse.tokens.DML:
if sql_type == "SELECT":
return self._query(command, fetch)
else:
self._write(command)
select_sql = self.convert_sql_write_to_select(command)
print(f"write result query:{select_sql}")
return self._query(select_sql)
else:
print(f"DDL execution determines whether to enable through configuration ")
cursor = self.client.command(command)
if cursor.written_rows:
result = cursor.result_rows
field_names = result.column_names
result = list(result)
result.insert(0, field_names)
print("DDL Result:" + str(result))
if not result:
# return self._query(f"SHOW COLUMNS FROM {table_name}")
return self.get_simple_fields(table_name)
return result
else:
return self.get_simple_fields(table_name)
def get_simple_fields(self, table_name):
"""Get column fields about specified table."""
return self._query(f"SHOW COLUMNS FROM {table_name}")
def get_current_db_name(self):
return self.client.database
def get_table_comments(self, db_name: str):
session = self.client
_query_sql = f"""
SELECT table, comment FROM system.tables WHERE database = '{db_name}'""".format(
db_name
)
table_comments = cursor.fetchall()
return [
(table_comment[0], table_comment[1]) for table_comment in table_comments
]
with session.query_row_block_stream(_query_sql) as stream:
table_comments = [row for block in stream for row in block]
return table_comments
def get_table_comment(self, table_name: str) -> Dict:
"""Get table comment.
Args:
table_name (str): table name
Returns:
comment: Dict, which contains text: Optional[str], eg:["text": "comment"]
"""
session = self.client
_query_sql = f"""
SELECT table, comment FROM system.tables WHERE database = '{self.client.database}'and table = '{table_name}'""".format(
self.client.database
)
with session.query_row_block_stream(_query_sql) as stream:
table_comments = [row for block in stream for row in block]
return [{"text": comment} for table_name, comment in table_comments][0]
def get_column_comments(self, db_name, table_name):
session = self.client
_query_sql = f"""
select name column, comment from system.columns where database='{db_name}' and table='{table_name}'
""".format(
db_name, table_name
)
with session.query_row_block_stream(_query_sql) as stream:
column_comments = [row for block in stream for row in block]
return column_comments
def table_simple_info(self):
# group_concat() not supported in clickhouse, use arrayStringConcat+groupArray instead; and quotes need to be escaped
_sql = f"""
select concat(TABLE_NAME, \'(\' , arrayStringConcat(groupArray(column_name),\'-\'), \')\') as schema_info
from information_schema.COLUMNS where table_schema=\'{self.get_current_db_name()}\' group by TABLE_NAME; """
cursor = self.session.execute(text(_sql))
results = cursor.fetchall()
return results
_sql = f"""
SELECT concat(TABLE_NAME, '(', arrayStringConcat(groupArray(column_name), '-'), ')') AS schema_info
FROM information_schema.COLUMNS
WHERE table_schema = '{self.get_current_db_name()}'
GROUP BY TABLE_NAME
"""
with self.client.query_row_block_stream(_sql) as stream:
return [row[0] for block in stream for row in block]
def _write(self, write_sql: str):
"""write data
Args:
write_sql (str): sql string
"""
# TODO need to be implemented
print(f"Write[{write_sql}]")
result = self.client.command(write_sql)
print(f"SQL[{write_sql}], result:{result.written_rows}")
def _query(self, query: str, fetch: str = "all"):
"""Query data from clickhouse
Args:
query (str): sql string
fetch (str, optional): "one" or "all". Defaults to "all".
Raises:
ValueError: Error
Returns:
_type_: List<Result>
"""
# TODO need to be implemented
print(f"Query[{query}]")
if not query:
return []
cursor = self.client.query(query)
if fetch == "all":
result = cursor.result_rows
elif fetch == "one":
result = cursor.first_row
else:
raise ValueError("Fetch parameter must be either 'one' or 'all'")
field_names = cursor.column_names
result.insert(0, field_names)
return result
def __sql_parse(self, sql):
sql = sql.strip()
parsed = sqlparse.parse(sql)[0]
sql_type = parsed.get_type()
if sql_type == "CREATE":
table_name = self._extract_table_name_from_ddl(parsed)
else:
table_name = parsed.get_name()
first_token = parsed.token_first(skip_ws=True, skip_cm=False)
ttype = first_token.ttype
print(f"SQL:{sql}, ttype:{ttype}, sql_type:{sql_type}, table:{table_name}")
return parsed, ttype, sql_type, table_name
def _sync_tables_from_db(self) -> Iterable[str]:
"""Read table information from database"""
# TODO Use a background thread to refresh periodically
# SQL will raise error with schema
_schema = (
None if self.db_type == DBType.SQLite.value() else self._engine.url.database
)
# including view support by adding the views as well as tables to the all
# tables list if view_support is True
self._all_tables = set(
self._inspector.get_table_names(schema=_schema)
+ (
self._inspector.get_view_names(schema=_schema)
if self.view_support
else []
)
)
return self._all_tables

View File

@ -76,7 +76,7 @@ def _parse_table_summary(
table_name(column1(column1 comment),column2(column2 comment),column3(column3 comment) and index keys, and table comment: {table_comment})
"""
columns = []
for column in conn._inspector.get_columns(table_name):
for column in conn.get_columns(table_name):
if column.get("comment"):
columns.append(f"{column['name']} ({column.get('comment')})")
else:
@ -84,7 +84,7 @@ def _parse_table_summary(
column_str = ", ".join(columns)
index_keys = []
for index_key in conn._inspector.get_indexes(table_name):
for index_key in conn.get_indexes(table_name):
key_str = ", ".join(index_key["column_names"])
index_keys.append(f"{index_key['name']}(`{key_str}`) ")
table_str = summary_template.format(table_name=table_name, columns=column_str)
@ -92,7 +92,7 @@ def _parse_table_summary(
index_key_str = ", ".join(index_keys)
table_str += f", and index keys: {index_key_str}"
try:
comment = conn._inspector.get_table_comment(table_name)
comment = conn.get_table_comment(table_name)
except Exception:
comment = dict(text=None)
if comment.get("text"):

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@ -536,6 +536,7 @@ def all_datasource_requires():
# mysqlclient 2.2.x have pkg-config issue on 3.10+
"mysqlclient==2.1.0",
"pydoris>=1.0.2,<2.0.0",
"clickhouse-connect",
]

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@ -1,3 +1,23 @@
"""_Create_table
CREATE TABLE default.my_first_table
(
`user_id` UInt32,
`message` String,
`timestamp` DateTime,
`metric` Float32
)
ENGINE = MergeTree
PRIMARY KEY (user_id, timestamp)
ORDER BY (user_id, timestamp);
# INSERT INTO my_first_table (user_id, message, timestamp, metric) VALUES
(101, 'Hello, ClickHouse!', now(), -1.0 ),
(102, 'Insert a lot of rows per batch', yesterday(), 1.41421 ),
(102, 'Sort your data based on your commonly-used queries', today(), 2.718 ),
(101, 'Granules are the smallest chunks of data read', now() + 5, 3.14159 )
"""
from typing import Dict, List
import pytest
from dbgpt.datasource.rdbms.conn_clickhouse import ClickhouseConnect
@ -7,3 +27,42 @@ from dbgpt.datasource.rdbms.conn_clickhouse import ClickhouseConnect
def db():
conn = ClickhouseConnect.from_uri_db("localhost", 8123, "default", "", "default")
yield conn
def test_create_table(db):
_create_sql = """
CREATE TABLE IF NOT EXISTS my_first_table
(
`user_id` UInt32,
`message` String,
`timestamp` DateTime,
`metric` Float32
)
ENGINE = MergeTree
PRIMARY KEY (user_id, timestamp)
ORDER BY (user_id, timestamp);
"""
db.run(_create_sql)
assert list(db.get_table_names()) == ["my_first_table"]
def test_get_table_names(db):
assert list(db.get_table_names()) == ["my_first_table"]
def test_get_indexes(db):
assert [index.get("name") for index in db.get_indexes("my_first_table")][
0
] == "primary_key"
def test_get_fields(db):
assert list(db.get_fields("my_first_table")[0])[0][0] == "user_id"
def test_get_table_comments(db):
assert db.get_table_comments("my_first_table") == []
def test_get_columns_comments(db):
assert db.get_column_comments("default", "my_first_table")[0][1] == ""

View File

@ -34,7 +34,7 @@ def db():
"localhost",
3307,
"root",
"******",
"********",
"test",
engine_args={"connect_args": {"charset": "utf8mb4"}},
)

View File

@ -63,32 +63,16 @@ npm run dev
npm run compile
# copy compile file to DB-GPT static file dictory
cp -r -f /Db-GPT-Web/out/* /DB-GPT/pilot/server/static/
cp -rf out/* ../dbgpt/app/static
```
## 📚 Documentation
For full documentation, visit [document](https://db-gpt.readthedocs.io/en/latest/index.html).
For full documentation, visit [document](https://docs.dbgpt.site/).
## 📺 Screenshots
Run on an RTX 4090 GPU.
#### Agent
![Agent](./screenshots/agent.gif)
#### ChatExcel
![ChatExcel](./screenshots/chatexcel.gif)
#### Knowledge
![Knowledge](./screenshots/knowledge.gif)
#### Models
![models](./screenshots/models.gif)
#### FastChat
![FastChat](./screenshots/fastchat.gif)
#### vllm
![vllm](./screenshots/vllm.gif)
## Usage
[react-markdown](https://github.com/remarkjs/react-markdown#readme) for markdown support.
[ant-design](https://github.com/ant-design/ant-design) for ui components.
[next.js](https://github.com/vercel/next.js) for server side rendering.