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IMP Reference Guide  develop.a3ebfe92e8,2023/01/27
The Integrative Modeling Platform
IMP.EMageFit.database.Database2 Class Reference

Class to manage a SQL database built with sqlite3. More...

+ Inheritance diagram for IMP.EMageFit.database.Database2:

Detailed Description

Class to manage a SQL database built with sqlite3.

Note
This class is only available in Python.

Definition at line 16 of file database.py.

Public Member Functions

def add_column
 Add a column to a table column - the name of the column. More...
 
def add_columns
 Add columns to the database. More...
 
def check_if_is_connected
 Checks if the class is connected to the database filename. More...
 
def close
 Closes the database. More...
 
def connect
 Connects to the database in filename. More...
 
def create
 Creates a database by simply connecting to the file. More...
 
def create_table
 Creates a table. More...
 
def create_view
 creates a view of the given table where the values are selected using the condition values. More...
 
def drop_table
 Delete a table if it exists. More...
 
def drop_view
 Removes a view from the database. More...
 
def get_condition_string
 creates a condition applying each value to each field More...
 
def get_table
 Returns th fields requested from the table. More...
 
def get_table_column_names
 Get the names of the columns for a given table. More...
 
def get_table_types
 Gets info about a table and retuns all the types in it. More...
 
def retrieve_data
 Retrieves data from the database using the sql_command returns the records as a list of tuples. More...
 
def select_table
 Prompt for tables so the user can choose one. More...
 
def store_data
 Inserts information in a given table of the database. More...
 
def store_dataV1
 Inserts information in a given table of the database. More...
 
def update_data
 updates the register in the table identified by the condition values for the condition fields More...
 

Member Function Documentation

def IMP.EMageFit.database.Database2.add_column (   self,
  table,
  column,
  data_type 
)

Add a column to a table column - the name of the column.

data_type - the type: int, float, str

Definition at line 246 of file database.py.

def IMP.EMageFit.database.Database2.add_columns (   self,
  table,
  names,
  types,
  check = True 
)

Add columns to the database.

If check=True, columns with names already in the database are skipped. If check=False no check is done and trying to add a column that already exists will raise and exception

Definition at line 257 of file database.py.

def IMP.EMageFit.database.Database2.check_if_is_connected (   self)

Checks if the class is connected to the database filename.

Definition at line 42 of file database.py.

def IMP.EMageFit.database.Database2.close (   self)

Closes the database.

Definition at line 196 of file database.py.

def IMP.EMageFit.database.Database2.connect (   self,
  filename 
)

Connects to the database in filename.

Definition at line 35 of file database.py.

def IMP.EMageFit.database.Database2.create (   self,
  filename,
  overwrite = False 
)

Creates a database by simply connecting to the file.

Definition at line 28 of file database.py.

def IMP.EMageFit.database.Database2.create_table (   self,
  table_name,
  column_names,
  column_types 
)

Creates a table.

It expects a sorted dictionary of (data_field,typename) entries

Definition at line 48 of file database.py.

def IMP.EMageFit.database.Database2.create_view (   self,
  view_name,
  table_name,
  condition_fields,
  condition_values 
)

creates a view of the given table where the values are selected using the condition values.

See the help for update_data()

Definition at line 145 of file database.py.

def IMP.EMageFit.database.Database2.drop_table (   self,
  table_name 
)

Delete a table if it exists.

Definition at line 64 of file database.py.

def IMP.EMageFit.database.Database2.drop_view (   self,
  view_name 
)

Removes a view from the database.

Definition at line 178 of file database.py.

def IMP.EMageFit.database.Database2.get_condition_string (   self,
  fields,
  values 
)

creates a condition applying each value to each field

Definition at line 202 of file database.py.

def IMP.EMageFit.database.Database2.get_table (   self,
  table_name,
  fields = False,
  orderby = False 
)

Returns th fields requested from the table.

Definition at line 182 of file database.py.

def IMP.EMageFit.database.Database2.get_table_column_names (   self,
  name 
)

Get the names of the columns for a given table.

Definition at line 231 of file database.py.

def IMP.EMageFit.database.Database2.get_table_types (   self,
  name 
)

Gets info about a table and retuns all the types in it.

Definition at line 213 of file database.py.

def IMP.EMageFit.database.Database2.retrieve_data (   self,
  sql_command 
)

Retrieves data from the database using the sql_command returns the records as a list of tuples.

Definition at line 117 of file database.py.

def IMP.EMageFit.database.Database2.select_table (   self)

Prompt for tables so the user can choose one.

Definition at line 279 of file database.py.

def IMP.EMageFit.database.Database2.store_data (   self,
  table_name,
  data 
)

Inserts information in a given table of the database.

The info must be a list of tuples containing as many values as columns in the table Conversion of values is done AUTOMATICALLY after checking the types stored in the table

Definition at line 95 of file database.py.

def IMP.EMageFit.database.Database2.store_dataV1 (   self,
  table_name,
  data 
)

Inserts information in a given table of the database.

The info must be a list of tuples containing as many values as columns in the table Conversion of values is done AUTOMATICALLY after checking the types stored in the table

Definition at line 75 of file database.py.

def IMP.EMageFit.database.Database2.update_data (   self,
  table_name,
  updated_fields,
  updated_values,
  condition_fields,
  condition_values 
)

updates the register in the table identified by the condition values for the condition fields

Definition at line 125 of file database.py.


The documentation for this class was generated from the following file: