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Commit d68be9e2 authored by Venkat Malladi's avatar Venkat Malladi
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Change diffbind peaks.

parent a8753bd3
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1 merge request!20Resolve "Use SampleIds/ Experiment Id as file names throughtout pipeline"
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workflow/tests/test_diff_peaks.py
+ 12
− 4
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......@@ -23,8 +23,12 @@ def test_diff_peaks_singleend_multiple_rep():
assert os.path.exists(os.path.join(test_output_path, 'heatmap.pdf'))
assert os.path.exists(os.path.join(test_output_path, 'pca.pdf'))
assert os.path.exists(os.path.join(test_output_path, 'normcount_peaksets.txt'))
assert os.path.exists(os.path.join(test_output_path, 'ENCSR272GNQ_vs_ENCSR238SGC_diffbind.bed'))
diffbind_file = test_output_path + 'ENCSR272GNQ_vs_ENCSR238SGC_diffbind.csv'
if os.path.isfile(os.path.join(test_output_path, 'ENCSR272GNQ_vs_ENCSR238SGC_diffbind.bed')):
assert os.path.exists(os.path.join(test_output_path, 'ENCSR272GNQ_vs_ENCSR238SGC_diffbind.bed'))
diffbind_file = test_output_path + 'ENCSR272GNQ_vs_ENCSR238SGC_diffbind.csv'
else os.path.isfile(os.path.join(test_output_path, 'ENCSR238SGC_vs_ENCSR272GNQ_diffbind.bed')):
assert os.path.exists(os.path.join(test_output_path, 'ENCSR238SGC_vs_ENCSR272GNQ_diffbind.bed'))
diffbind_file = test_output_path + 'ENCSR238SGC_vs_ENCSR272GNQ_diffbind.csv'
assert os.path.exists(diffbind_file)
assert utils.count_lines(diffbind_file) == 201039
......@@ -33,7 +37,11 @@ def test_annotate_peaks_pairedend_single_rep():
assert os.path.exists(os.path.join(test_output_path, 'heatmap.pdf'))
assert os.path.exists(os.path.join(test_output_path, 'pca.pdf'))
assert os.path.exists(os.path.join(test_output_path, 'normcount_peaksets.txt'))
assert os.path.exists(os.path.join(test_output_path, 'ENCSR757EMK_vs_ENCSR729LGA_diffbind.bed'))
diffbind_file = test_output_path + 'ENCSR757EMK_vs_ENCSR729LGA_diffbind.csv'
if os.path.isfile(os.path.join(test_output_path, 'ENCSR757EMK_vs_ENCSR729LGA_diffbind.bed')):
assert os.path.exists(os.path.join(test_output_path, 'ENCSR757EMK_vs_ENCSR729LGA_diffbind.bed'))
diffbind_file = test_output_path + 'ENCSR757EMK_vs_ENCSR729LGA_diffbind.csv'
else os.path.isfile(os.path.join(test_output_path, 'ENCSR729LGA_vs_ENCSR757EMK_diffbind.bed')):
assert os.path.exists(os.path.join(test_output_path, 'ENCSR729LGA_vs_ENCSR757EMK_diffbind.bed'))
diffbind_file = test_output_path + 'ENCSR729LGA_vs_ENCSR757EMK_diffbind.csv'
assert os.path.exists(diffbind_file)
assert utils.count_lines(diffbind_file) == 66201
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