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
Fri Jan 26 00:43:25 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: 400
Chunk of reads size: 1000
Number of threads: 16
Processed 50 out of 400 windows...
Processed 100 out of 400 windows...
Processed 150 out of 400 windows...
Processed 200 out of 400 windows...
Processed 250 out of 400 windows...
Processed 300 out of 400 windows...
Processed 350 out of 400 windows...
Processed 400 out of 400 windows...
Total processed windows:400
Number of reads: 560
Number of valid reads: 233
Number of correct strand reads:0
Fri Jan 26 00:43:27 CST 2024		WARNING	SAMRecordParser marked 180 problematic reads.

Inside of regions...
Num mapped reads: 233
Num mapped first of pair: 148
Num mapped second of pair: 85
Num singletons: 151
Time taken to analyze reads: 1
Computing descriptors...
numberOfMappedBases: 22860
referenceSize: 4411532
numberOfSequencedBases: 22857
numberOfAs: 4129
Computing per chromosome statistics...
Computing histograms...
Overall analysis time: 1
end of bam qc
Computing report...
Writing HTML report...
HTML report created successfully

Finished