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uclahs-cds / package-moPepGen

Multi-Omics Peptide Generator
https://uclahs-cds.github.io/package-moPepGen/
GNU General Public License v2.0
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`--verbose-level 2` does nothing for circRNAs? #309

Closed lydiayliu closed 2 years ago

lydiayliu commented 2 years ago

I ran circ + variants with --verbose-level 2 and --noncanonical-transcripts and got an output fasta but not a lot of logs XD

[ 2021-12-22 22:25:56 ] moPepGen callVariant started
[ 2021-12-22 22:28:57 ] Variant file /data/Parser/CIRCexplorer3/TOPHAT/CPCG0259_IP_quant.txt.1.3ff.gvf loaded.
[ 2021-12-22 22:45:30 ] Variant file /data/Parser/VEP/gencode/gsnp/CPCG0259.gencode.tsv.gvf loaded.
[ 2021-12-22 22:46:32 ] Variant file /data/Parser/VEP/gencode/gindel/CPCG0259.gencode.tsv.gvf loaded.
[ 2021-12-22 22:46:33 ] Variant file /data/Parser/VEP/gencode/somaticsniper/CPCG0259.gencode.tsv.gvf loaded.
[ 2021-12-22 22:46:33 ] Variant file /data/Parser/VEP/gencode/pindel/CPCG0259.gencode.tsv.gvf loaded.
[ 2021-12-22 22:47:01 ] Variant records sorted.
[ 2021-12-22 22:49:32 ] circRNA processed.
[ 2021-12-22 22:49:32 ] Variant peptide FASTA file written to disk.
zhuchcn commented 2 years ago

I think this is already fixed.