I installed all dependencies and run the test file (test_circleseq.py) but failed, the error shown is "control_U2OS_EMX1.bam does not match between folders"
`[M::bwa_idx_load_from_disk] read 0 ALT contigs
[main] Version: 0.7.11-r1034
[main] CMD: bwa mem data/input/CIRCLEseq_test_genome.fa data/output/fastq/control_U2OS_EMX1_merged.fastq.gz
[main] Real time: 0.001 sec; CPU: 0.006 sec
[05/31 04:25:40PM][INFO][alignReads] Paired end mapping for control_U2OS_EMX1 completed.
[05/31 04:25:40PM][INFO][alignReads] samtools sort -o data/output/aligned/control_U2OS_EMX1.bam data/output/aligned/control_U2OS_EMX1.sam
[05/31 04:25:40PM][INFO][alignReads] Sorting by coordinate position for control_U2OS_EMX1 complete.
[05/31 04:25:40PM][INFO][alignReads] samtools index data/output/aligned/control_U2OS_EMX1.bam
[05/31 04:25:40PM][INFO][alignReads] Indexing for control_U2OS_EMX1 complete.
[05/31 04:25:40PM][INFO][alignReads] samtools sort -o data/output/aligned/control_U2OS_EMX1_sorted.bam -n data/output/aligned/control_U2OS_EMX1.bam
[05/31 04:25:40PM][INFO][alignReads] Sorting for control_U2OS_EMX1 by name complete.
[05/31 04:25:40PM][INFO][circleseq] Finished merging and aligning reads.
control_U2OS_EMX1.bam does not match between folders.
F
Traceback (most recent call last):
File "circleseq-master/test/test_circleseq.py", line 45, in testFullPipeline
self.assertTrue(utils.checkFolderEquality(os.path.join(c.analysis_folder, "aligned"), CORRECT_ALIGNED_OUTPUT))
AssertionError: False is not true
`
I installed all dependencies and run the test file (test_circleseq.py) but failed, the error shown is "control_U2OS_EMX1.bam does not match between folders"
`[M::bwa_idx_load_from_disk] read 0 ALT contigs [main] Version: 0.7.11-r1034 [main] CMD: bwa mem data/input/CIRCLEseq_test_genome.fa data/output/fastq/control_U2OS_EMX1_merged.fastq.gz [main] Real time: 0.001 sec; CPU: 0.006 sec [05/31 04:25:40PM][INFO][alignReads] Paired end mapping for control_U2OS_EMX1 completed. [05/31 04:25:40PM][INFO][alignReads] samtools sort -o data/output/aligned/control_U2OS_EMX1.bam data/output/aligned/control_U2OS_EMX1.sam [05/31 04:25:40PM][INFO][alignReads] Sorting by coordinate position for control_U2OS_EMX1 complete. [05/31 04:25:40PM][INFO][alignReads] samtools index data/output/aligned/control_U2OS_EMX1.bam [05/31 04:25:40PM][INFO][alignReads] Indexing for control_U2OS_EMX1 complete. [05/31 04:25:40PM][INFO][alignReads] samtools sort -o data/output/aligned/control_U2OS_EMX1_sorted.bam -n data/output/aligned/control_U2OS_EMX1.bam [05/31 04:25:40PM][INFO][alignReads] Sorting for control_U2OS_EMX1 by name complete. [05/31 04:25:40PM][INFO][circleseq] Finished merging and aligning reads. control_U2OS_EMX1.bam does not match between folders. F
FAIL: testFullPipeline (main.FullPipelineTestCaser)
Traceback (most recent call last): File "circleseq-master/test/test_circleseq.py", line 45, in testFullPipeline self.assertTrue(utils.checkFolderEquality(os.path.join(c.analysis_folder, "aligned"), CORRECT_ALIGNED_OUTPUT)) AssertionError: False is not true `