Hello!
Thanks a lot for a great tool!
I am running into an issue where one of the files (log_FDR.bw) is referenced in trackDb.txt, but does not exist. The snakemake pipeline ends without any errors and all the other bigwig files exist. Removing the missing file mention from trackDb.txt allows me create a UCSC session. There no mention of this file in the snakemake log file.
I had this issue in v0.1.3 and v.0.2.0, with both ONT and pacbio data, hg38 and T2Tv2.0.
example command run for v0.2.0:
pixi run --manifest-path /dummy/path/to/software/FIRE/pixi.toml fire --configfile config.yaml
more config.yaml
ref: /dummy/path/to/references/chm13_v2.0_maskedY.rCRS/fasta/chm13v2.0_maskedY_rCRS.fa
ref_name: hs1
manifest: config.tbl
ont: True
excludes:
- /dummy/path/to/fire/resources/T2Tv2.0.SDs.bed.gz
- /dummy/path/to/fire/resources/T2Tv2.0.censat.bed.gz
- /dummy/path/to/data/T2T.excluderanges.bed.gz
max_t: 36
Do you know how to solve this? Thanks a lot for your help,
Alex
Hello!
Thanks a lot for a great tool!
I am running into an issue where one of the files (
log_FDR.bw) is referenced intrackDb.txt, but does not exist. The snakemake pipeline ends without any errors and all the other bigwig files exist. Removing the missing file mention fromtrackDb.txtallows me create a UCSC session. There no mention of this file in the snakemake log file.I had this issue in
v0.1.3andv.0.2.0, with both ONT and pacbio data, hg38 and T2Tv2.0.example command run for v0.2.0:
Do you know how to solve this? Thanks a lot for your help,
Alex