Java memory size is set to 1200M
Launching application...

QualiMap v.2.2.1
Built on 2016-10-03 18:14

Selected tool: bamqc
Available memory (Mb): 32
Max memory (Mb): 1118
Wed Jan 17 03:21:37 CST 2024		WARNING	Output folder already exists, the results will be saved there

Starting bam qc....
Loading sam header...
Loading locator...
Loading reference...
Number of windows: 400, effective number of windows: 397
Chunk of reads size: 1000
Number of threads: 16
Processed 50 out of 397 windows...
Processed 100 out of 397 windows...
Processed 150 out of 397 windows...
Processed 200 out of 397 windows...
Processed 250 out of 397 windows...
Processed 300 out of 397 windows...
Processed 350 out of 397 windows...
Total processed windows:397
Number of reads: 492592
Number of valid reads: 117787
Number of correct strand reads:0

Inside of regions...
Num mapped reads: 117787
Num mapped first of pair: 58929
Num mapped second of pair: 58858
Num singletons: 466
Time taken to analyze reads: 4
Computing descriptors...
numberOfMappedBases: 11505315
referenceSize: 13627
numberOfSequencedBases: 11504258
numberOfAs: 3806073
Computing per chromosome statistics...
Computing histograms...
Overall analysis time: 4
end of bam qc
Computing report...
Writing HTML report...
HTML report created successfully

Finished