Skip to content

Commit

Permalink
updating hifiasm output name
Browse files Browse the repository at this point in the history
  • Loading branch information
LiaOb21 committed Jan 3, 2024
1 parent 79fd486 commit 5ce346c
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion workflow/rules/purge_dups2.smk
Original file line number Diff line number Diff line change
Expand Up @@ -31,7 +31,7 @@ rule run_purge_dups_alt:
split_fa merged.fa > hifiasm.asm.split >> {log} 2>&1
minimap2 -xasm5 -DP hifiasm.asm.split hifiasm.asm.split -t {config[minimap2][t]} | gzip -c - > hifiasm.split.self.paf.gz >> {log} 2>&1
purge_dups -2 -T cutoffs -c PB.base.cov hifiasm.split.self.paf.gz > dups.bed 2> purge_dups.log
get_seqs -e dups.bed results/hifiasm/hifiasm.asm.bp.a_ctg.fa > hifiasm_a_purged.fa >> {log} 2>&1
get_seqs -e dups.bed results/hifiasm/hifiasm.asm.a_ctg.fa > hifiasm_a_purged.fa >> {log} 2>&1
hist_plot.py -c cutoffs PB.stat hist.out.png >> {log} 2>&1
mkdir -p results/purge_dups/ >> {log} 2>&1
Expand Down

0 comments on commit 5ce346c

Please sign in to comment.