view env/lib/python3.9/site-packages/bioblend/galaxy/datatypes/__init__.py @ 0:4f3585e2f14b draft default tip

"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"

"""
Contains possible interactions with the Galaxy Datatype
"""
from bioblend.galaxy.client import Client


class DatatypesClient(Client):

    def __init__(self, galaxy_instance):
        self.module = 'datatypes'
        super().__init__(galaxy_instance)

    def get_datatypes(self, extension_only=False, upload_only=False):
        """
        Get the list of all installed datatypes.

        :type extension_only: bool
        :param extension_only: Return only the extension rather than the datatype name

        :type upload_only: bool
        :param upload_only: Whether to return only datatypes which can be uploaded

        :rtype: list
        :return: A list of datatype names.
          For example::

            ['snpmatrix',
             'snptest',
             'tabular',
             'taxonomy',
             'twobit',
             'txt',
             'vcf',
             'wig',
             'xgmml',
             'xml']
        """

        params = {}
        if extension_only:
            params['extension_only'] = True

        if upload_only:
            params['upload_only'] = True

        return self._get(params=params)

    def get_sniffers(self):
        """
        Get the list of all installed sniffers.

        :rtype: list
        :return: A list of sniffer names.
          For example::

            ['galaxy.datatypes.tabular:Vcf',
             'galaxy.datatypes.binary:TwoBit',
             'galaxy.datatypes.binary:Bam',
             'galaxy.datatypes.binary:Sff',
             'galaxy.datatypes.xml:Phyloxml',
             'galaxy.datatypes.xml:GenericXml',
             'galaxy.datatypes.sequence:Maf',
             'galaxy.datatypes.sequence:Lav',
             'galaxy.datatypes.sequence:csFasta']
        """
        url = self._make_url() + '/sniffers'
        return self._get(url=url)