broadinstitute / ichorCNA

Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
GNU General Public License v3.0
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PON error #133

Open gagank4911 opened 5 months ago

gagank4911 commented 5 months ago

Parsing: fixedStep chrom=chr1 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr2 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr3 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr4 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr5 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr6 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr7 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr8 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr9 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr10 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr11 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr12 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr13 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr14 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr15 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr16 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr17 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr18 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr19 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr20 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr21 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr22 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chrX start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chrY start=1 step=1000000 span=1000000 Sorting by decreasing chromosome size Reading GC and mappability files Parsing: fixedStep chrom=chr1 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr2 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr3 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr4 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr5 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr6 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr7 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr8 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr9 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr10 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr11 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr12 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr13 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr14 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr15 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr16 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr17 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr18 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr19 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr20 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr21 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr22 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chrX start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chrY start=1 step=1000000 span=1000000 Sorting by decreasing chromosome size Parsing: fixedStep chrom=chr1 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr2 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr3 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr4 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr5 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr6 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr7 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr8 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr9 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr10 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr11 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr12 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr13 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr14 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr15 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr16 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr17 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr18 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr19 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr20 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr21 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chr22 start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chrX start=1 step=1000000 span=1000000 Parsing: fixedStep chrom=chrY start=1 step=1000000 span=1000000 Sorting by decreasing chromosome size Removed 121 bins near centromeres. Applying filter on data... Correcting for GC bias... Error in predLoess(object$y, object$x, newx = if (is.null(newdata)) object$x else if (is.data.frame(newdata)) as.matrix(model.frame(delete.response(terms(object)), : NA/NaN/Inf in foreign function call (arg 5) Calls: loadReadCountsFromWig ... eval -> eval -> predict -> predict.loess -> predLoess In addition: There were 50 or more warnings (use warnings() to see the first 50) Execution halted