Filtering soft clipped reads from paired-end RNA-seq sam files
    usage: cat <samFile> | ./filterSoftClipped -s <oneSideSoftclipFractionThreshold> -b <bothEndSoftclippedThreshold> [-vp]
    
    <oneSideSoftclipFractionThreshold>    oneSideSoftclipFractionThresholdThreshold for filtering one side softclip sequence. Must be between 0 and 1 [default: 0.3]
    <bothEndSoftclippedThreshold>         bothEndSoftclippedThresholdThreshold for filtering both side softclip sequence. Must be between 0 and 1 [default: 0.4]
    -v                                    Debugging mode: print out all failed alignments
    -p                                    paired-end mode [default = single end]
    If the soft clipped bases count > (threshold * [whole sequence length]), the alignment will be filter out