Hi, to test the circle-seq pipeline, I ran the following command "python ../circleseq/circleseq.py all --manifest tmp.yaml" in the test directory with this YAML file
tmp.yaml.txt, however, I got the error that samtools can't find the input file, the detailed information in this file
error.log, when I ran "samtools sort -o /home/yzli2/project/software/circleseq/test/data/myoutput/aligned/control_TestSample.bam /home/yzli2/project/software/circleseq/test/data/myoutput/aligned/control_TestSample.sam" seperately, there was no error.
the system: centos6, window10 WSL
python version: 2.7
bwa version: 0.7.11
samtools version: 1.3
Hi, to test the circle-seq pipeline, I ran the following command "python ../circleseq/circleseq.py all --manifest tmp.yaml" in the test directory with this YAML file tmp.yaml.txt, however, I got the error that samtools can't find the input file, the detailed information in this file error.log, when I ran "samtools sort -o /home/yzli2/project/software/circleseq/test/data/myoutput/aligned/control_TestSample.bam /home/yzli2/project/software/circleseq/test/data/myoutput/aligned/control_TestSample.sam" seperately, there was no error. the system: centos6, window10 WSL python version: 2.7 bwa version: 0.7.11 samtools version: 1.3