pyxetabase 4.0.0.dev83__tar.gz → 4.0.0.dev85__tar.gz

{pyxetabase-4.0.0.dev83 → pyxetabase-4.0.0.dev85}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: pyxetabase
-Version: 4.0.0.dev83
+Version: 4.0.0.dev85
 Summary: A REST client for OpenCGA enterprise REST web services
 Author: Daniel Perez-Gil
 Author-email: daniel.perez@zettagenomics.com

pyxetabase-4.0.0.dev85/pyxetabase/rest_clients/f_h_i_r_client.py

@@ -0,0 +1,63 @@
+"""
+WARNING: AUTOGENERATED CODE
+
+    This code was generated by a tool.
+    
+    Manual changes to this file may cause unexpected behavior in your application.
+    Manual changes to this file will be overwritten if the code is regenerated.
+"""
+
+from pyxetabase.rest_clients._parent_rest_clients import _ParentRestClient
+
+
+class FHIR(_ParentRestClient):
+    """
+    This class contains methods for the 'FHIR' webservices
+    PATH: /{apiVersion}/fhir
+    """
+
+    def __init__(self, configuration, token=None, login_handler=None, *args, **kwargs):
+        super(FHIR, self).__init__(configuration, token, login_handler, *args, **kwargs)
+
+    def observation(self, _query, **options):
+        """
+        Observation web service.
+        PATH: /{apiVersion}/fhir/Observation
+
+        :param str _query: One of 'ptlist', 'ptcount' or 'ptvars'. (REQUIRED)
+        :param str _type: Comma separated observation variants.
+        :param str _type_filter: Used to restrict the variant to a specific
+            gene only, or a specific chromosome only, or a variant type only
+            for the _variantLocation. Valid values are: gene, chr,
+            exon,fusion,CNV.
+        :param str _since: Date of variant report that results must be >=
+            (anded with _until).
+        :param str _until: Date of variant report that results must be <= 
+            (anded w/_since).
+        :param str _elements: Comma separated list of observation.variant
+            elements to include in response (see observation.variant spec for
+            names to be used).
+        :param str patient: Comma separated list of patient research ids to
+            filter response.
+        :param str _variant_desc: String(s) using full HGVS or ISCN
+            nomenclature.
+        :param str _variant_location: String(s) using genomic coordinates of
+            location or HGNC approved gene symbols. for fusions use the ::
+            between the 5' and 3' ends of the genes or chromosomes (e.g.,
+            ROS1::SDC4 or 3:123456::4:345756).
+        :param int _patient_limit: How many patients to limit response to.
+        """
+
+        options['Query'] = _query
+        return self._get(category='fhir', resource='Observation', **options)
+
+    def find_variants(self, data=None, **options):
+        """
+        Retrieve count or list of patients having specified variants.
+        PATH: /{apiVersion}/fhir/findVariants
+
+        :param dict data: Mandatory body parameter. (REQUIRED)
+        """
+
+        return self._post(category='fhir', resource='findVariants', data=data, **options)
+

{pyxetabase-4.0.0.dev83 → pyxetabase-4.0.0.dev85}/pyxetabase.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: pyxetabase
-Version: 4.0.0.dev83
+Version: 4.0.0.dev85
 Summary: A REST client for OpenCGA enterprise REST web services
 Author: Daniel Perez-Gil
 Author-email: daniel.perez@zettagenomics.com

{pyxetabase-4.0.0.dev83 → pyxetabase-4.0.0.dev85}/pyxetabase.egg-info/SOURCES.txt

@@ -21,6 +21,7 @@ pyxetabase/rest_clients/clinical_analysis_client.py
 pyxetabase/rest_clients/cohort_client.py
 pyxetabase/rest_clients/cvdb_client.py
 pyxetabase/rest_clients/disease_panel_client.py
+pyxetabase/rest_clients/f_h_i_r_client.py
 pyxetabase/rest_clients/family_client.py
 pyxetabase/rest_clients/federation_client.py
 pyxetabase/rest_clients/file_client.py

{pyxetabase-4.0.0.dev83 → pyxetabase-4.0.0.dev85}/setup.py

@@ -14,7 +14,7 @@ with open(path.join(here, 'README.rst'), encoding='utf-8') as f:
 
 setup(
     name='pyxetabase',
-    version='4.0.0.dev83',
+    version='4.0.0.dev85',
     description='A REST client for OpenCGA enterprise REST web services',
     long_description=long_description,
     long_description_content_type='text/x-rst',