Commit ff6be21a authored by Spencer Barnes's avatar Spencer Barnes
Browse files

modify strings in mouse align pytest

parent e3e30bf3
Pipeline #7436 passed with stages
in 106 minutes and 8 seconds
......@@ -41,26 +41,26 @@ def test_map_reads_pairedend():
aligned_reads_report = test_output_path + 'heart1/heart_a_S2_R1_001_val_1_bismark_bt2_PE_report.txt'
samtools_report = open(aligned_reads_report).readlines()
assert 'Sequence pairs analysed in total:\t18107045\n' in samtools_report[6]
assert 'Mapping efficiency:\t57.3%\n' in samtools_report[8]
assert 'Mapping efficiency:\t57.3% \n' in samtools_report[8]
assert "Total number of C's analysed:\t345193812\n" in samtools_report[23]
assert os.path.exists(os.path.join(test_output_path, 'heart2/heart_b_S4_R1_001_val_1_bismark_bt2_pe.bam'))
aligned_reads_report = test_output_path + 'heart2/heart_b_S4_R1_001_val_1_bismark_bt2_PE_report.txt'
samtools_report = open(aligned_reads_report).readlines()
assert 'Sequence pairs analysed in total:\t12016511\n' in samtools_report[6]
assert 'Mapping efficiency:\t51.4%\n' in samtools_report[8]
assert 'Mapping efficiency:\t51.4% \n' in samtools_report[8]
assert "Total number of C's analysed:\t200311991\n" in samtools_report[23]
assert os.path.exists(os.path.join(test_output_path, 'liver1/liver_a_S4_R1_001_val_1_bismark_bt2_pe.bam'))
aligned_reads_report = test_output_path + 'liver1/liver_a_S4_R1_001_val_1_bismark_bt2_PE_report.txt'
samtools_report = open(aligned_reads_report).readlines()
assert 'Sequence pairs analysed in total:\t16444589\n' in samtools_report[6]
assert 'Mapping efficiency:\t55.9%\n' in samtools_report[8]
assert 'Mapping efficiency:\t55.9% \n' in samtools_report[8]
assert "Total number of C's analysed:\t310540010\n" in samtools_report[23]
assert os.path.exists(os.path.join(test_output_path, 'liver2/Liver_b_S2_R1_001_val_1_bismark_bt2_pe.bam'))
aligned_reads_report = test_output_path + 'liver2/Liver_b_S2_R1_001_val_1_bismark_bt2_PE_report.txt'
samtools_report = open(aligned_reads_report).readlines()
assert 'Sequence pairs analysed in total:\t8166172\n' in samtools_report[6]
assert 'Mapping efficiency:\t50.0%\n' in samtools_report[8]
assert 'Mapping efficiency:\t50.0% \n' in samtools_report[8]
assert "Total number of C's analysed:\t137359898\n" in samtools_report[23]
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