## Manager.biosql.biosql.SQLiteBioSQL


Usage

``` python
Manager.biosql.biosql.SQLiteBioSQL(
    database_name=None,
    proj_mana=ProjectManagement,
    template_name="Template-BioSQL-SQLite.db",
    **kwargs
)
```


## Methods

| Name | Description |
|----|----|
| [__init__()](#__init__) | This class inherits the BaseBioSQL class. |
| [copy_template_database()](#copy_template_database) | This method copies a template sqlite biosql database into the destination folder. |
| [create_template_database()](#create_template_database) | Creates a template database by uploading SQLite schema and NCBI taxonomy. |
| [load_sqlite_schema()](#load_sqlite_schema) | Loads an SQLite biosql schema into a database file. |
| [load_sqlite_taxonomy()](#load_sqlite_taxonomy) | Load an SQLite biosql database with taxonomy information. This will only work for NCBI. There is not any |
| [update_sqlite_taxonomy()](#update_sqlite_taxonomy) | Update an SQLite biosql database with taxonomy information. |
| [upload_files()](#upload_files) | Uploads files into a BioSQL database. |

------------------------------------------------------------------------


#### \_\_init\_\_()


This class inherits the BaseBioSQL class.


Usage

``` python
__init__(
    database_name=None,
    proj_mana=ProjectManagement,
    template_name="Template-BioSQL-SQLite.db",
    **kwargs
)
```


It uses the base methods to load schema, load taxonomy (NCBI), and create/copy template SQLite databases loaded with biosql schema and/or taxonomy data.


##### Parameters


`database_name: str. = None`  
The name of the database.

`proj_mana: ProjectManagement. = ProjectManagement`  
A configuration variable for connecting projects.

`template_name: str. = ``"Template-BioSQL-SQLite.db"`  
The name of the template.

`kwargs: dict. = {}`  
Key-word arguments.


------------------------------------------------------------------------


#### copy_template_database()


This method copies a template sqlite biosql database into the destination folder.


Usage

``` python
copy_template_database(destination)
```


##### Parameters


`destination: str.`  
The path to copy the template into.


------------------------------------------------------------------------


#### create_template_database()


Creates a template database by uploading SQLite schema and NCBI taxonomy.


Usage

``` python
create_template_database()
```


------------------------------------------------------------------------


#### load_sqlite_schema()


Loads an SQLite biosql schema into a database file.


Usage

``` python
load_sqlite_schema()
```


------------------------------------------------------------------------


#### load_sqlite_taxonomy()


Load an SQLite biosql database with taxonomy information. This will only work for NCBI. There is not any


Usage

``` python
load_sqlite_taxonomy()
```


support for the SQLite PhyloDB.


------------------------------------------------------------------------


#### update_sqlite_taxonomy()


Update an SQLite biosql database with taxonomy information.


Usage

``` python
update_sqlite_taxonomy()
```


------------------------------------------------------------------------


#### upload_files()


Uploads files into a BioSQL database.


Usage

``` python
upload_files(seqtype, filetype, upload_path, upload_list=None)
```


##### Parameters


`seqtype: str.`  
The type of sequence (rna, protein, genomic).

`filetype: str.`  
The type of file used to load into the BioSQL database (usually genbannk).

`upload_path: str.`  
The relative path to the database to be uploaded to.

`upload_list: list. = None`  
A list of files to upload.