BWA mapping ERROR

Question

[meekadi]

Hi, I'm getting an error from running the following command on bwa:

mem -R "@RG\tID:C5KW4ANXX.7\tPL:Illumina\tPU:LANE7\tLB:250_PE_multiplex\tDT:2014-10-27\tSM:sample29" Ch.CHIR1.0.fasta sample29_pairedF.fq.gz sample29_pairedR.fq.gz > sample29_RG_Ch.chr.sam
the error output is as follows:
[M::main_mem] read 80848 sequences (10000027 bp)...
[M::mem_pestat] # candidate unique pairs for (FF, FR, RF, RR): (1, 29479, 3, 1)
[M::mem_pestat] skip orientation FF as there are not enough pairs
[M::mem_pestat] analyzing insert size distribution for orientation FR...
[M::mem_pestat] (25, 50, 75) percentile: (182, 249, 358)
[M::mem_pestat] low and high boundaries for computing mean and std.dev: (1, 710)
[M::mem_pestat] mean and std.dev: (279.14, 129.57)

How can i remove the error? if i use the output the way it is, will my end results be affected? Thanks

Answer 1

[dariober]

There is no error it seems to me. These are just logs from bwa. It would help a lot if you could add some formatting to your post though.

[meekadi]

Thank you very much, I will try and format it