Generate histogram Via BBmap tool

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/ 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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