bioproject_to_srr_2: tests.py comparison

planemo upload for repository https://toolrepo.galaxytrakr.org/view/jpayne/bioproject_to_srr_2/556cac4fb538

comparison

equal deleted inserted replaced

-:80f1001797c7
+:2d4a2159c74b
+import pytest
+from bio2srr import *
+def test_element_tree_xpath():
+from xml.etree import ElementTree as xml
+root = xml.fromstring(biosample_example)
+assert root.find(".//Id[@db='BioSample']") is not None
+def test_flatten_biosample_xml():
+d = flatten_biosample_xml(biosample_example)
+assert d['biosample_accession'] == 'SAMN17131268'
+assert d['organism'] == 'Campylobacter jejuni'
+assert d['isolate'] == 'CFSAN091032'
+def test_flatten_runs():
+d = list(flatten_runs(runs_example))
+assert len(d) == 2
+def test_header_sort_override_consistency():
+import random
+L = ["C", "B", "A", "taxid", "bioproject"]
+L.sort(key=hso)
+# assert L[0] == "bioproject"
+A = L.copy()
+assert A == L
+R = []
+for _ in range(100):
+random.shuffle(A)
+A.sort(key=hso)
+R.append(A == L)
+assert all(R)
+def test_hso_override():
+assert header_sort_override("bioproject", "taxid") < 0
+assert header_sort_override("taxid", "bioproject") > 0
+assert header_sort_override("taxid", "taxid") == 0
+def test_hso_regular():
+assert header_sort_override("A", "B") < 0
+assert header_sort_override("B", "A") > 0

Mercurial > repos > jpayne > bioproject_to_srr_2