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sztup / scarHRD

MIT License
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Collecting GC information Error in (function (x, col_types) #29

Open deb0612 opened 10 months ago

deb0612 commented 10 months ago

Dear sir, I ran sacrHRD normally untill recent months. The error message below: image

Is that the R version or any update ?

seetarajpara commented 9 months ago

I've also been getting this error, never experienced it before...

s-juross commented 8 months ago

I've been getting this error too... The error appears in the function chunk.apply(). Calls: scar_score ... preprocess.seqz -> sequenza.extract -> gc.sample.stats -> chunk.apply Do you have a solution now?

nr23730 commented 8 months ago

The problem is that the iotools package changed it's API. The sequenza package that scarHRD relies on uses it. I pushed a hotfix release here: https://github.com/buschlab/sequenza that you can install using devtools::install_github("buschlab/sequenza", build_vignettes = FALSE). Other option would be to downgrade iotools to 0.3-2.

Frank9938 commented 5 months ago

The problem is that the iotools package changed it's API. The sequenza package that scarHRD relies on uses it. I pushed a hotfix release here: https://github.com/buschlab/sequenza that you can install using devtools::install_github("buschlab/sequenza", build_vignettes = FALSE). Other option would be to downgrade iotools to 0.3-2.

That was very helpful, thank you!