Error in seqinfo(ranges) : UCSC library operation failed

[jsl26]

Hello,

I keep running into the error below:

[1] "Progress : 98/100"
[1] "Progress : 100/100"
[1] "Reselect nucleotide context for SNV using altered threshold"
[1] "Select epigenetic features for SNV/indel"
[1] "Binning mean_rep_time into 10 bins"
Error in seqinfo(ranges) : UCSC library operation failed
In addition: Warning message:
In seqinfo(ranges) : No such file or directory
mustOpenFd: Can't open ./features/wgEncodeUwRepliSeqWaveSignalMean.bigWig to read

my command to run is the default command and i am using the default features files which are in the correct location.

my MAF file looks like the following
Chr Start End Ref Alt names
1 chr1 216948153 216948153 T A Patient1
2 chr18 14447057 14447057 C A Patient1
3 chr2 170698127 170698127 T C Patient1

not sure what is happening here some googling around mentioned this might be an rtracklayer issue?

anyways some help would be much appreciated.

[changmmm]

Hi,

Thanks for using our package. Yes, the issue is likely to be related to the library when importing the BigWig file. The import function works for R 3.6 with rtracklayer_1.46.0. If you are not able to try with the versions we have provided, may we know which the versions you are using so that we can take a closer look into the issue? Thanks!