bbrowserx-connector 0.1.1

BioTuring BBrowserX Connector

BBrowserXPro Connector

Installation

!pip install -U bbrowserx_connector

Import

import warnings
warnings.filterwarnings("ignore")

import os

import bbrowserx_connector
from bbrowserx_connector import BBrowserXProConnector
from bbrowserx_connector import DefaultGroup 

Domain and Token

DOMAIN = "<BBROWSERXPRO_DOMAIN>"
TOKEN = "<YOUR_TOKEN>"

Explore Account

Information

connector = BBrowserXProConnector(domain=DOMAIN, token=TOKEN)
bbrowserx_connector.format_print(connector.info)

bbrowserx_connector.format_print(connector.groups)

Storage

bbrowserx_connector.format_print(connector.s3)

bbrowserx_connector.format_print(connector.folders)

Project Information

project_list = connector.list_project(
    group=DefaultGroup.PERSONAL_WORKSPACE.value,
    species=Species.HUMAN.value,
)
bbrowserx_connector.format_print(project_list)

Uploading

uploading_results = connector.upload_file("<YOUR_FILE_PATH>")
bbrowserx_connector.format_print(uploading_results)

uploading_results = connector.upload_big_file("<YOUR_FILE_PATH>", debug_mode=True)
bbrowserx_connector.format_print(uploading_results)

uploading_results = connector.upload_folder("<YOUR_FILE_PATH>", debug_mode=True)
bbrowserx_connector.format_print(uploading_results)

Submission

submission_info = bbrowserx_connector.H5ADFormat(
    name="Scanpy object",
    file_path="<PATH_TO_H5AD_FILE>"
)
bbrowserx_connector.format_print(submission_info.parse())

submission_result = connector.submit(
    group="Personal workspace",
    species=bbrowserx_connector.Species.HUMAN,
    title="Untitled project",
    study_name="Untitled study",
    study_data=[submission_info],
    filter_params={},
    normalize=True,
)
bbrowserx_connector.format_print(submission_result)