TendoLiu

Results 5 comments of TendoLiu

Run error: panic: start must be less than end

Thank you so much. Please see my script and the log. Script： `module load af4 hg19_UCSC=/bgfs/soesterreich/pan_data/soesterreich/Tendo/ReferenceFiles/hg19_Versions/ucsc.hg19.fasta/ucsc.hg19.fasta anno=/bgfs/soesterreich/pan_data/soesterreich/Tendo/ReferenceFiles/hg19_Versions/Other/annotation/gencode.v31.chr_patch_hapl_scaff.annotation.gtf.gz bio-fusion -generate-transcriptome \ -output /bgfs/soesterreich/pan_data/soesterreich/Tendo/InstalledTools/af4/gencode.v26.whole_genes.fa \ -keep-mitochondrial-genes \ -keep-readthrough-transcripts \ -keep-pary-locus-transcripts \ -keep-versioned-genes...

Run error: panic: start must be less than end

It seems that there was a "panic" when generating the transcriptome file, but the file was produced anyway. Note that I am using a newer version of annotation file. And...

Run error: panic: start must be less than end

[gencode.v26.whole_genes.txt](https://github.com/grailbio/bio/files/3806069/gencode.v26.whole_genes.txt) Just in case you want to look at the transcriptome file. I converted .fa to .txt to be able to upload.

Run error: panic: start must be less than end

Any follow-up?

How to specifiy sample paired normal control in snakemake pipeline

Thanks Gavin. I was trying to modify the snakemake file by myself and this one confirmed I was not doing the wrong thing. BTW, I thought ichorCNA was optimized to...