Add test for motif search output.

workflow/tests/test_motif_search.py

+#!/usr/bin/env python3
+
+import pytest
+import pandas as pd
+from io import StringIO
+import os
+import utils
+
+test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
+                '/../output/motifSearch/'
+
+
+@pytest.mark.singleend
+def test_motif_search_singleend():
+    assert os.path.exists(os.path.join(test_output_path, 'ENCSR238SGC.fa'))
+    assert os.path.exists(os.path.join(test_output_path, 'ENCSR238SGC_memechip', 'index.html'))
+    peak_file_ENCSR238SGC = test_output_path + 'sorted-ENCSR238SGC.replicated.narrowPeak'
+    assert os.path.exists(peak_file_ENCSR238SGC)
+    assert utils.count_lines(peak_file_ENCSR238SGC) == 600
+
+@pytest.mark.pairedend
+def test_motif_search_pairedend():
+    assert os.path.exists(os.path.join(test_output_path, 'ENCSR729LGA.fa'))
+    assert os.path.exists(os.path.join(test_output_path, 'ENCSR729LGA_memechip', 'index.html'))
+    peak_file_ENCSR729LGA= test_output_path + 'sorted-ENCSR729LGA.replicated.narrowPeak'
+    assert os.path.exists(peak_file_ENCSR729LGA)
+    assert utils.count_lines(peak_file_ENCSR729LGA) == 600