pileup.js Splicing doesn't appear to be handled correctly?

I have a BAM file which looks like this in IGV:

Note the splicing

plotting the same with pileup.js looks like this:

What is interesting is if i click on a location, this is the readout:

Which means i suspect that when pileup.js encounters an "N" in the cigar string, it simply adds a count to the last item in the bin.

I can't readily see where to correct that, but ifyou could point me in the right direction, i'd be happy to take a stab at correcting

thoughts?

Oct 17 '19 18:10 choosehappy

Thanks for finding this @choosehappy!

What is the expected output you intend to see in the popup? I believe the code you are looking for can be found in the getOpInfo function, which parses the cigar string. Is this what you are looking for?

We would love any contributions! The best way to get started would be to make a unit test in pileup utils , simulate a Alignment with a similar CigarString, and then test the modified getOpInfo function.

Oct 17 '19 18:10 akmorrow13

this is an example of one of the reads:

OBIWAN:364:CBYHYANXX:6:1103:3120:61918/1        0       integrated      108     60      115M8933N5M1S   *       0       0       GTTAGATATTTATTGATTTTTGGATGGTGTTATAAGTTAGTATTAGTTGAGTTAGATAAGGGAGAAGAGGTTAATAAAGGAGAGAATATAAGTTTGTTATATTTTGTGAGTTTGTATGGAG       FBFB7/F<FFFFFF<FF</F</B/<//F</<<<FBFBF<BBFFB<BF<B<B</FF</F<F<///<FB//F<////FF<FBBF/FB<<///B/FF<BFFBF<FF<///</FFFFFF</BBBB
       AS:i:-7 NM:i:2  MD:Z:61T27T30   NH:i:1  HI:i:1  YG:Z:C2T        YR:Z:C2T

The main point is to look at the cigar string:

115M8933N5M1S

It looks like the "8933N" is counted as a coverage, when in fact it should not be

I can verify this by looking at the pile up:

 samtools view -h 36_LV_sorted_1kreduced.bam integrated | samtools mpileup - > pileup.txt

looking at that particular location shown above:

 cat pileup.txt | grep 4322 | cut -f 5

this is what the bases look like:

>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>A>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>AAA$AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

which coincides with these counts:

cat pileup.txt | grep 4322 | cut -f 5 | sed 's/\(.\)/\1\n/g' | sort | uniq -ic
   4263 >
      1 $
    909 A
      1 G

so, i would expect the pileup.js pop up to say:

909 A 1 G

While in fact all of the ">" are being bundled into the "A"

Do you see what i'm saying?

Oct 17 '19 20:10 choosehappy

By the way, this is the entire pileup line for that point:

integrated      4322    N       5173    >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>A>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>AAA$AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA BBBB/BB/B/BBBBBB/BBBBBBBBBBBBBB<<BBBBBBBBBBBBBB<BBBBBBBB/BBBBBBBBBBBBBFBBBFBBF<BBBBB/BFB/B<BBB<BBBFBBBB<B/BFFFF/F7F/FFFFFFFFFFFFBFFFFFFFB<B/B//FB</BBBBBFFFBFFBFFBBFFFFFFFFFFFFFFFFFFBF/FFFFFBBB<BBFB/FBBFFFFFFB/FFFFFFFF<BBB<B<</</<<B<<</<FB<BBB<</BBBFBB</BB<<//B<BB/B/FF<B//F<BBFFBBB/BBFB<B<BB/<B<BBB<BF<<<B<B<<<<<//BB<<<<<</<<<</<<<<B/<<<</<B<</<F<B<<B</<BB<<<//</<<B<<<</<<<<<<B<B<<<<<<<<<B<<<<<BB<<<<<<<<<<B<B<B<B/<<<<B<<<<<<<B/<<<B<<<<<B/<</<<<<<<</<<<</<<<<<<<</</<B<<<<<<B<<<<<<<<<B<<BB</B<<<BBBB/BFF<FB<BBB<B<</BF</<B<<B<<<B<<<<<<<BB</<BBB/<F/<BBBBB/BB<<BBBFBB<B<B<</B<B<<B<<B<<<<<</B<<FBBBF<FBB<<B<<<B<F/B<BF<FB<<<B<<BBB<<<<BBBBF<BF/BBFFFFFFFFFFFFFFBBFFFFFFFBFFF<FFFFFFFFFFFFFFFFFFFFFF<FFBFFFFFFFFBFFFFFFFFBFFFFFFFFFFFFFFFFFFBFFFFFBFFFFFFBF/FFFFFFFFFFFFFFF<FFFFFFFFFFFFFBF<FFFFF/B<BB<//<<</<BBB<//<<FBBBBBBBBBBBBBBBBBBBBBBB//<FF/<BBBFF/F</BFFFFFFFFFFFFFFF<FFFFFFFFFFFFFFFFFFFFFFFFFF<B<<<<<B<<<<<F<<<BBB<<<B/</<FF////F/BBFFBB</<<BBFBBFF/FB<FBBB<BB</FB<FF/FFFF<BFFFBFFF/FFFF7FFFF</FF/F<BBFBBFB/BBBB/FFFFFFFB<FFFFFF//FF<FBF<BBBF<F<<BBB//BBF/<BFBFFFFFB<<<<FFBBFFB</B<BFBBBB<///FBF<FBFBB</<F<<BBBFBFF<FFFFB<F/F/BBB<</<<BB<</BF<B/B/<FFFFBB//FBFBFB<F/FBBB</BF/<//<<BB<FBF</<BBFB/FFBBFBB<FFF//BFBFFFF/<<FBF/F/</B<<<<<BB</FB/<FBFF//F<F</B//<BFFFFFB/FFBB/FFFFFFFFB/BF/FFFFFF/<FF/FBBFBFFF<FFFB/<BBF/F<B<BF/<</B/BFFFFFFFFF<FFFFFFFFFFFFFFFFFFFFFFFF/FFFFFFFFFBFF/F/FFFFFBFFFFF<FFFFFFFB<<B</FFFFFF<FFFFFFFBFFFFFFF7FFFFFFF<FFF/FFFFFFFFFF/FFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFFFFFBFFFFFFF<FFFFFFFFFFFFFFFFFFBBFFFFFFFFFF/FFFFFFFFFFF<FFFFFFFFFFFFFFFFFFFFFF<FFFFFFFFFFFFBFFFFFFFFFFFFFFFFFFFF/F<BBFFFB/FBBFF/BF</<<B<B/B<B/<F<//B//</<B<FFBBFB<BB<FFF/<//FB<<//B//<B</<FFFF<F<FBFBBBBF///FF<BB<BF<<B/F/<BF<<F<B<</BBFBB/BBBF<<FFFFFFFFFBBF</FB/BF/B/F/B<F</BFFFFFFF/FFFFFFFBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF<FFFF/FFFFFFFFFFFFFFFFF<FFFFFFFFFFFFFFFFFFFBFFFFFFFFFF<FFFFFFFFFFFFF/FFFFFFFFFFFFFFFF/FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFFFFFFFFFFFFFBFFFFFFFFFFFFFFFFFFF<FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFFFFFFFFFFF/BFFFFFFFFFFFFFF/FFBFFFFFFFBFB/BFFFFF//F//FFFFFFF<FFF<7F<F<FBFFFF/FBFB<BBBBBBBBBBBB<<B<<B/B/BBB<<BBB/<B<BBBBBBBBBBBBBBBBBB<BBBB<BBBB/BBBBBBBBBB<BBB<BBBBBBB<BBBB<BBB/<</B<//B<BFF/B//BBB/B/BB<<BBBB<<BBBB/BB<BBBB<BBB/BBBBBBBFBBBBB/B/<BBBB<FFFFFFFFFFFFFFFFFBFFFFFFFFFFF/FFFFFFFBFFFFFFFFFFFB/<<F/FBFFFFFFFFFFBFF/<FFFFFF/FFFF/BBBB/B/FFBBFB/BB/BBBBBB/BBBBBFBB<<B//B/BBFBF<BBBBBBB<B<FB<FBB<BFB<BB/<<B/BBBB<B<BBBB<<BBFBFBBBB/</BBB/<FBBBBBBBBBBBBBB/BBBF/BBB/<BB/B/B//BFBB/<<FBBBFBBB<BBBBBBBB//<BFBBBFBBBB<BBF<<B</BBBBBFB<BB<BBBB/BB<<B<BBBB<B</</BBBB<BBBBBBBB<BBB<BBBB//BBBBBFBBBB<<BBBBFBB/BB<B<<BBBBBBBB<BFBBBB<<BBBBF/FBBB<B<BBBB<F/BB</B</<<B/BB</FBB/BBBBBFB<///FB<B/BF/B/BBFBBF<BFFB//<FFBBBBBBBBBBBBBBBBBBBBBBBBFBBB<BBBBBBFFFFFB<<BBFBBBB/B<B/BFBFFBFFB</FFBBB<B</FFFFFFFFFF<BBB</BBFF/B<B<<BBFFFBBFFFBFBFBB<FBFBBBBBBBFBBB/BFBB/B/BBFBFFFBFFFFFBFFFFFFFFF/FFFFBFFFFFFBFFBF<BBBFBBBBBBFBB/BBBBBBBBBBBFBBBB<BFFFFFFBFFBFFFFBFFFFFFFFF<BFBBBBBBBBB/FFFB<BFFFBFFFFBFFBBFFFFFBFFFF/BFFFFBBFFB<FFFFBFFFFFFFFFFFBFBBBFBBBBBFFFFBBFBBB/BBBBBBBBBBBBBBBBBBBBBBBBBBBBBFFFBBB/BBBBBBBB<BBBBBBFF<<FFFBBBB<BF/BBBBBBB/<FFFFFBFFFFFFFFFFFFFFFFFFFFBFBBFBBF/B<//B<</B//</<///F<<BBBBF<</<B<FBFB/FB/B<//FB///BF<FF/BF/FB/FB/FFBF//F</<FF<//BFFBF<</FBF/F<B///F<FF/FF//F<////</BFF//<<<<B<</B<F/F//<FFF<FFB/F<<FF/</FBFFB<<//BB/F<<</FFF<//B/<FB<F/</<<F</FF/FF/F<FFFFFFF/F<BFFFBFF/F<///B<BFFF/FF</<FF<F<F<B//F<<F<BBF<FF<BFB</F<<F/F/FFF<FFBF<FFFF/FF/FFF<FFFFFBFFFFFFFFFF<FFFBFFFFFFFFFFFFF<F<BF7FFFFFF<BFFFFFFF<FFFF<FBFB<F<FBF7FFFFFFFFFFB/FFFFFFFFFFFF7<FFFFFF<FFFB7FFF/FFFF7BFBFFFFFFFF/<BFFFFFF<F<FFF/FFFFFFFFFFFF/<FFF//FFFFBFFFF7FBFF<FFFFFFFFFFFFFFFFFFFBBB/FFFFB/FFFFFFFF7FFFBFFFFF<FFFFF<FFFBFBFFFFFFFFFFFFFF/BBBBBBBFFFFFBBBFFFFF/FFF/BBFFFF/FFFB<<<B<<<</<<//B<<</BB<<B<BB<BBFBBBFB<<B<B/<//B/B<BB<</B<B/<B<</B<B<F<<B<<</<F/<B<<BFFFFBBBBF/BBBBFFBFFFFFFFF//FBF<F/FF/FFB<BB<FF/FBFBFFFFBFFFBFF</<FB<<<BBB/<BBBBBB<BBB<BB/<FFFFFFFFBBFBBFFBFFFFFFFFFFFBBFF<FF/FBFFFFFFFFBFFFFFFFFFFFFFBFFFFF<FFFFFFFFFFFFFFFB/BBBBBBBBBBBB//////////B//BBFBFFFFFFFFFF/F/FFFFFFFFFBBBFF/FFFFBF/F/F/<B<B/FBFF<F</FBFFFFFBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFFFFFFFBFFFFFFFFFFFFFFFFFFFF<FFFFFFFFF<FFFFFBFFFFFF/FFFFFFFFFBFFFFFFFF/FFF/<///FB<BBFFBBBF//FBB<BBB<BB<<BB</F/F/B/</<BBBBFFB<FBBBFF<FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBBFFFFFFFFFFBFFFFFFFFFFFFFF<FFBFFFFFFFFBFFFFFFB<FFFFF<FBFFFFFFFF<FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFF/FFFFFFFFFFFFFFFFFFFBFFFFFFFF/FF/<FFFFFF/FFF/FFFFFFFFFFFFFFFFFFFF<F/FFFFFFFFFFFFFFFFFFFFFFFF<FFFF<FFFFFFFFFFFFFFFFFBFFFF/FFFFF<FFFFFFFFFFFFFBFFFFFF<F<FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFBFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF/FFFFFFFF/FFFFFFFFFFFF<FFFFFFFFFFFFFFFFFFBFFFFFFFFFFFFFFFFF<FFFF/FFFFFFFFFFF/FFFFFFFFFFFFFFFFFBFFBFFBFFFFFFFFFFFFFFFFFFFFFFFF<FFFFFFF/FF/FFFFFFBFFFFFFFFF<FFFFFF/FFFFFFBFFFFFFFFFFFFF<FFFFFFFFFFFFFFBFFFFFFFFFFFFFFFFFF/FFFFFFFFFFFFFFFF<FFFFFFFFFFF/FFFFFFFBFFFFFFFFFFFFFFFFFFFF<FFFFFFFFFFFFBFFFFFFFFF<FFFFFBFFFFFFFFFFFFFFFFFF/FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF/FF/FFFFFFFFFFFFFFB/FFFFFFFFFFFFFFFFBBFFBBFFFF<FF<FFFFFFFFFFFFFFF

so pileup.js is reporting the coverage is "5173 " when really it should be 910, with 909 being "A" and "1" being G

Oct 17 '19 21:10 choosehappy