query.py

#!/usr/bin/env python3

# Copyright (c) 2017 The Ontario Institute for Cancer Research. All rights
# reserved.
#
# This program and the accompanying materials are made available under the
# terms of the GNU Public License v3.0.
# You should have received a copy of the GNU General Public License along
# with this program. If not, see <http://www.gnu.org/licenses/>.

# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS
# IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO,
# THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
# PURPOSE ARE DISCLAIMED.
# IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY
# DIRECT,  INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
# (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
# SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
# HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER
# IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
# OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
# ADVISED OF THE  POSSIBILITY OF SUCH DAMAGE.
"""
query.py

This script demonstrates running a simple PQL query against the ICGC data
portal with the icgc module.
"""
from __future__ import absolute_import, print_function

import icgc


def run():
    """
    Demonstrate PQL by displaying 1 of each request type as JSON output
    """
    for request_type in icgc.request_types():
        response = icgc.query(request_type=request_type,
                              pql='select(*),limit(1)')
        print(request_type, "===\n\n", response)


if __name__ == '__main__':
    run()