Generate histogram Via BBmap tool
Hello there, I am trying to generate histogram for paired end reads via bbmap tool program. However I am getting this output:
root@cemb-ls1-pgs:/mnt/cemb/S017679/raw# /home/fizzah/bbmap/reformat.sh BU21R1.fastq qchist=qchist.txt
java -ea -Xms300m -cp /home/fizzah/bbmap/current/ jgi.ReformatReads BU21R1.fastq qchist=qchist.txt
Executing jgi.ReformatReads [BU21R1.fastq, qchist=qchist.txt]
Set qcount histogram output to qchist.txt
No output stream specified. To write to stdout, please specify 'out=stdout.fq' or similar.
Input is being processed as unpaired
Input: 37926174 reads 5726852274 bases
Output: 37926174 reads (100.00%) 5726852274 bases (100.00%)
Time: 50.960 seconds.
Reads Processed: 37926k 744.23k reads/sec
Bases Processed: 5726m 112.38m bases/sec
when I specify stream output, it says:
File qchist.txt exists and overwrite=false
Please guide about its solution
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