[MRG] add test to confirm failure when summarizing on empty gather (#…

…1560)

* added summarize on empty gather.csv test

* added empty taxonomy csv test

* fix typo

* Update test_tax.py

* trouble shoot tests

* troubleshooting empty gather test

* fixed, maybe? (#1596)

* trying to pull

* cleaned up test_summarize_empty_gather_tax...

* cleaned test_summarize_empty_gather

* fixed test comments

* removed comment

* Update tests/test_tax.py

Co-authored-by: Tessa Pierce Ward <[email protected]>

* Update tests/test_tax.py

Co-authored-by: Tessa Pierce Ward <[email protected]>

* updated empty-gather test

Co-authored-by: Tessa Pierce Ward <[email protected]>
Co-authored-by: C. Titus Brown <[email protected]>

tests/test_tax.py

@@ -795,19 +795,50 @@ def test_label_0(runtmp):
     assert "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola;s__Phocaeicola vulgatus" in lin_gather_results[3]
     assert "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella;s__Prevotella copri" in lin_gather_results[4]
 
-## some test ideas to start with -- see test_lca.py for add'l ideas
+def test_summarize_empty_gather_results(runtmp):
+    tax = utils.get_test_data('tax/test.taxonomy.csv')
+
+    #creates empty gather result
+    g_csv = runtmp.output('g.csv')
+    with open(g_csv, "w") as fp:
+        fp.write("")
+    print("g_csv: ", g_csv)
+
+    #FIXME: currently throwing a valueError
+    runtmp.run_sourmash('tax', 'summarize', g_csv, '--taxonomy-csv', tax)
+
+    assert f"No gather results loaded from {g_csv}" in str(runtmp.last_result.err)
+    assert runtmp.last_result.status == -1
+
+def test_summarize_empty_tax_lineage_input(runtmp):
+#    print(type(runtmp))
+    tax_empty = runtmp.output('t.csv')
+    g_csv = utils.get_test_data('tax/test1.gather.csv')
+
+    with open(tax_empty, "w") as fp:
+        fp.write("")
+    print("t_csv: ", tax_empty)
+    import sys
+
+  #  with pytest.raises(ValueError) as exc:
+    runtmp.run_sourmash('tax', 'summarize', g_csv, '--taxonomy-csv', tax_empty)
+   # assert f"No taxonomic assignments loaded from {tax_empty}" in str(exc.value)
+ #   if(str(exc.value) == "local variable 'n' referenced before assignment"):
+  #      print("[DEBUG] -------------------- PASSED")
+  #  else:
+  #      print("FAIL")
+    assert f"No taxonomic assignments loaded from {tax_empty}" in str(runtmp.last_result.err)
+    print(runtmp.last_result.status)
+    print(runtmp.last_result.out)
+    print(runtmp.last_result.err)
+
+    assert runtmp.last_result.status != 0 
+
 
-#def test_summarize_empty_gather_results():
-#    pass
-#def test_summarize_bad_gather_results():
-#    pass
-#def test_summarize_empty_lineage_input():
-#    pass
 #def test_summarize_bad_lineage_input():
 #    pass
 #def test_summarize_bad_rank():
 #    pass
-#
 #def test_classify_bad_gather_results():
 #    pass
 #def test_classify_bad_lineage_input():