isovic
racon: invalid option -- 'L'
Hello, I am following the polishing method of Mc Cartney et al., 2022, whose doi is https://doi.org/10.1038/s41592-022-01440-3, where Racon's liftover branches were used(https://github.com/isovic/racon/tree/liftover). Here is the command:
${RACON} -t ${threads} ${in_dataset} ${out_falconc_sam} ${in_draft} -L ${out_racon_fasta} -S > ${out_racon_fasta}
But when I tried this script, I got an error racon: invalid option -- 'L'. It seems that this version the paper used was discarded, so I have the question that whether you would re-release that or never? And if you won't, can you tell me how to get the vcf file the script need?
Best wishes!
I encountered the same situation，have you solved it ?
I didn't solve it and tried another method.
Ref https://github.com/arangrhie/T2T-Polish/blob/master/automated_polishing/README.md we can git clone https://github.com/isovic/racon.git cd racon git checkout liftover git submodule update --init --recursive mkdir build cd build cmake -DCMAKE_BUILD_TYPE=Release .. make
