Fix. Improved test coverage

Improved test coverage from 83% to 100% for taxa module with this commit.

.gitignore

@@ -18,4 +18,5 @@
 
 # Local test files
 test.py
-.replit
+*.replit
+tests.sh

.replit

@@ -1,2 +1 @@
-run="python test.py"
-lanuage='python'
+run="bash tests.sh"

pyobis/occurrences/occurrences.py

@@ -1,8 +1,23 @@
 from ..obisutils import *
-def search(scientificname=None, aphiaid=None, obisid=None, resourceid=None,
-    startdate=None, enddate=None, startdepth=None, enddepth=None,
-    geometry=None, year=None, qc=None, fields=None, limit=500, offset=0, 
-           mof=False, hasextensions=None, **kwargs):
+
+
+def search(scientificname=None,
+           aphiaid=None,
+           obisid=None,
+           resourceid=None,
+           startdate=None,
+           enddate=None,
+           startdepth=None,
+           enddepth=None,
+           geometry=None,
+           year=None,
+           qc=None,
+           fields=None,
+           limit=500,
+           offset=0,
+           mof=False,
+           hasextensions=None,
+           **kwargs):
     '''
     Search OBIS occurrences
 
@@ -54,14 +69,28 @@ def search(scientificname=None, aphiaid=None, obisid=None, resourceid=None,
     '''
     url = obis_baseurl + 'occurrence'
     scientificname = handle_arrstr(scientificname)
-    out = obis_GET(url, {'aphiaid': aphiaid, 'obisid': obisid,
-        'resourceid': resourceid, 'scientificname': scientificname,
-        'startdate': startdate, 'enddate': enddate, 'startdepth': startdepth,
-        'enddepth': enddepth, 'geometry': geometry, 'year': year,
-        'fields': fields, 'qc': qc, 'limit': limit, 'offset': offset, 'mof':mof,'hasextensions':hasextensions},
-        'application/json; charset=utf-8', **kwargs)
+    out = obis_GET(
+        url, {
+            'aphiaid': aphiaid,
+            'obisid': obisid,
+            'resourceid': resourceid,
+            'scientificname': scientificname,
+            'startdate': startdate,
+            'enddate': enddate,
+            'startdepth': startdepth,
+            'enddepth': enddepth,
+            'geometry': geometry,
+            'year': year,
+            'fields': fields,
+            'qc': qc,
+            'limit': limit,
+            'offset': offset,
+            'mof': mof,
+            'hasextensions': hasextensions
+        }, 'application/json; charset=utf-8', **kwargs)
     return out
 
+
 def get(id, **kwargs):
     '''
     Get an OBIS occurrence

pyobis/taxa/taxa.py

@@ -93,7 +93,7 @@ def taxon_search(scientificname=None, aphiaid=None, obisid=None, **kwargs):
         taxa.taxon_search(aphiaid = 127405)
         taxa.taxon_search(obisid = 472375)
     '''
-    url = obis_baseurl + 'taxon'
+    url = obis_baseurl +  'taxon/' + handle_arrstr(scientificname)
     out = obis_GET(url, {'aphiaid': aphiaid, 'obisid': obisid,
         'scientificname': scientificname}, 'application/json; charset=utf-8', **kwargs)
     return out

test.py

@@ -1,10 +1,8 @@
 # import requests
 # import pandas as pd
-from pyobis import occurrences
-
-print(occurrences.search(scientificname=["Abra","Mola"]))
-
+from pyobis import taxa
 
+print(taxa.taxon_search(scientificname = 'Mola'))
 def getExtensions(data):
     lis=[]
     a = pd.json_normalize(data, "mof", ["scientificName", "eventDate","id"])

tests/test_taxa.py

@@ -6,8 +6,8 @@ def test_taxa_search():
     "taxa.search - basic test"
     res = taxa.search(scientificname = 'Mola mola')
     assert 'dict' == res.__class__.__name__
-    assert 5 == len(res)
     assert list == list(res.keys()).__class__
+    assert 5 == len(res)
 
 def test_taxa_taxon():
     "taxa.taxon - basic test"
@@ -17,12 +17,12 @@ def test_taxa_taxon():
     assert list == list(res.keys()).__class__
     assert 545439 == res['valid_id']
 
-def test_taxa_taxon():
+def test_taxa_taxon_search():
     "taxa.taxon_search - basic test"
     res = taxa.taxon_search(scientificname = 'Mola')
     assert dict == res.__class__
-    assert 5 == len(res)
     assert list == list(res.keys()).__class__
+    assert 5 == len(res)
     assert 'Mola' == res['results'][0]['genus']
 
 def test_taxa_common():
@@ -35,4 +35,4 @@ def test_taxa_common():
     assert dict == res['results'][0].__class__
     xx = list(res['results'][0].keys())
     xx.sort()
-    assert ['language', 'name'] == xx
+    assert ['language', 'name'] == xx