Add example of data sources and fix examples

examples/return_studies.py

@@ -63,8 +63,8 @@
             },
             {
                 "name": "Imaging Method",
-                "value": "light sheet fluorescence microscopy, spim",
-                "operator": "equals",
+                "value": "light sheet fluorescence microscopy",
+                "operator": "contains",
                 "resource": "project",
             },
         ],

examples/search_values_for_key.py

@@ -40,24 +40,30 @@
 )
 
 resp = requests.get(url=attrs_url)
-res = json.loads(resp.text)
+ress = json.loads(resp.text)
 # a list contains the available attributes
-attributes = res.get("image")
-logging.info("Number of available attributes for images: %s" % len(attributes))  # noqa
+for res in ress:
+    data_source=res.get("data_source")
+    if not data_source:
+        continue
+    print ("Checking data source: %s "%data_source)
+    attributes = res.get("image")
+    logging.info("Number of available attributes for images: %s" % len(attributes))  # noqa
 
-"""
-The user can get the available values for the "Organism" attribute
-and the number of images for each value
-"""
-key = "Organism"
-values_attr_url = "{base_url}{image_key_values}?key={key}".format(
-    base_url=base_url, image_key_values=image_key_values, key=key
-)
-resp = requests.get(url=values_attr_url)
-res = json.loads(resp.text)
-# a list contains dicts of the available values with the number of images
-buckets = res.get("data")
-logging.info("Number of available buckets for attribute %s is %s" % (key, len(buckets)))
-# The first bucket
-for bucket in buckets:
-    logging.info("Bucket details: %s " % bucket)
+    """
+    The user can get the available values for the "Organism" attribute
+    and the number of images for each value
+    """
+    key = "Organism"
+    values_attr_url = "{base_url}{image_key_values}?key={key}&data_source={data_source}".format(
+        base_url=base_url, image_key_values=image_key_values, key=key, data_source=data_source
+    )
+    print (values_attr_url)
+    resp = requests.get(url=values_attr_url)
+    res = json.loads(resp.text)
+    # a list contains dicts of the available values with the number of images
+    buckets = res.get("data")
+    logging.info("Number of available buckets for attribute %s is %s" % (key, len(buckets)))
+    # The first bucket
+    for bucket in buckets:
+        logging.info("Bucket details: %s " % bucket)

examples/use_data_sources.py

@@ -0,0 +1,31 @@
+import logging
+import json
+import requests
+
+from utils import base_url
+
+'''
+Call the search engine to determine the available data sources'''
+
+data_source_url = "{base_url}resources/data_sources/".format(
+    base_url=base_url)
+
+logging.info(" getting the available data sources")
+resp = requests.get(url=data_source_url)
+data_sources = json.loads(resp.text)
+logging.info("There are %s data sources available, i.e. %s "%(len(data_sources), ', '.join(data_sources)))
+'''
+"The data source can be linked to queries to return search results from the specified data source.
+For example, the user can limit the search results to "bia" data source when querying the searchengine for "Organism" and "homo sapiens"
+ '''
+
+key="Organism"
+value="homo sapiens"
+data_source="bia"
+search_url= "{base_url}resources/image/search/?key={key}&value={value}&data_source={data_source}".format(
+    base_url=base_url, key=key, value=value, data_source=data_source)
+
+resp = requests.get(url=search_url)
+results = json.loads(resp.text)
+
+logging.info("The size of the returned results is %s" %results.get("results").get("size"))

examples/utils.py

@@ -27,7 +27,8 @@
 # url to get the next page for a query, bookmark is needed
 image_page_ext = "/resources/image/searchannotation_page/"
 # search engine url
-base_url = "http://127.0.0.1:5577/api/v1/"
+# base_url = "http://127.0.0.1:5577/api/v1/"
+base_url = "http://idr-testing.openmicroscopy.org/searchengine2/api/v1/"
 
 
 logging.basicConfig(stream=sys.stdout, level=logging.INFO)