GSgen

Thank you @glennhickey! I am trying the latest vg/1.38.0 using: ``` vg autoindex \ -w giraffe \ -g smooth.gfa \ -p out\ -t 12 \ -R XG -V 1 vg...

Hi @jonassibbesen, Could you share your email, and I can send you the data. Thank you!

@jonassibbesen, Thank you! I have sent the files to you.

Hi @jeizenga, I did not get a chance to follow up earlier. I combined the individual spliced graphs using `vg combine` and used: ``` vg combine spliced_ch*.pg > all_ch.pg vg...

@jeizenga I tried, ``` vg prune -k 64 -M 64 -P all_ch.pg > all_ch_pruned.pg vg index -p -g all_ch.gcsa all_ch_pruned.pg ``` It gave an `OUT_OF_MEMORY` for the `vg index` step...

I sent you an email. Thank you for your help.

Thank you @jeizenga! Could you share your email address and I can send you the input files. Thank you!

@jeizenga I have sent the files to you. Thank you!

Hi @jeizenga, thank you! I will try it. I am also working on building the full spliced graph.