QTL-seq:2021-05-03 11:36:27] start to run QTL-seq.
[QTL-seq:2021-05-03 11:36:27] maximum number of threads which you can use is up to 32.
[QTL-seq:2021-05-03 11:36:27] start to index reference fasta.
[QTL-seq:2021-05-03 11:52:37] indexing of reference successfully finished.
[QTL-seq:2021-05-03 11:52:37] start to merge BAMs.
[QTL-seq:2021-05-03 11:52:37] !!ERROR!! samtools sort -m 1G -@ 30 -o ../out/20_bam/parent.bam
../out/20_bam/parent.unsorted.bam >>
../out/log/samtools.log 2>&1
please check below:
[E::hts_open_format] Failed to open file "
../out/20_bam/parent.unsorted.bam" : No such file or directory
samtools sort: can't open "../out/20_bam/parent.unsorted.bam": No such file or directory
Is parent.unsorted.bam something I was supposed to generate?
Hi,
I am trying to run your pipeline from bam files.
I use the launch command:
However I get the following error:
Is parent.unsorted.bam something I was supposed to generate?