--- /dev/null
+import os
+import re
+
+try:
+ import json
+except ImportError, e:
+ import simplejson as json
+
+from django.test import TestCase
+
+from htsworkflow.frontend.auth import apidata
+from htsworkflow.pipelines.retrieve_config import format_gerald_config, getCombinedOptions
+
+class RetrieveTestCases(TestCase):
+ fixtures = ['test_flowcells.json']
+
+ def setUp(self):
+ pass
+
+ def test_format_gerald(self):
+ flowcell_request = self.client.get('/experiments/config/303TUAAXX/json', apidata)
+ self.failUnlessEqual(flowcell_request.status_code, 200)
+
+ print dir(flowcell_request)
+ flowcell_info = json.loads(flowcell_request.content)
+
+ options = getCombinedOptions(['-f','303TUAAXX','-g',os.getcwd()])
+ genome_map = {u'Homo sapiens': '/tmp/hg18' }
+
+ config = format_gerald_config(options, flowcell_info, genome_map)
+ config_lines = config.split('\n')
+ lane3 = [ line for line in config_lines if re.search('Lane3', line) ]
+ self.failUnlessEqual(len(lane3), 1)
+ self.failUnlessEqual(lane3[0], '# Lane3: SL039 | Paired ends 99 GM12892')
+ human = [ line for line in config_lines if re.search('hg18', line) ]
+ self.failUnlessEqual(len(human), 1)
+ self.failUnlessEqual(human[0], '345678:ELAND_GENOME /tmp/hg18')
+ unknown = [ line for line in config_lines if re.search('Unknown', line) ]
+ self.failUnlessEqual(len(unknown), 2)
+
+
+
+