# HG changeset patch # User bgruening # Date 1632345239 0 # Node ID 3f7be05a1597b655e67d0663e21cfed8c341cd26 # Parent 9ef6920c308937fafdd593b250395a8e1afebb57 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/hifiasm commit 8d76914ac4407512b1691a1ddd3d95dda6c80962" diff -r 9ef6920c3089 -r 3f7be05a1597 hifiasm.xml --- a/hifiasm.xml Thu Jun 24 19:42:15 2021 +0000 +++ b/hifiasm.xml Wed Sep 22 21:13:59 2021 +0000 @@ -1,14 +1,15 @@ - + haplotype-resolved de novo assembler for PacBio Hifi reads - 0.15.4 + 0.16.1 + 0 fasta,fasta.gz,fastq,fastq.gz - hifiasm + hifiasm yak hifiasm --version @@ -53,6 +54,11 @@ #if $advanced_options.min_hist_cnt: --min-hist-cnt $advanced_options.min_hist_cnt #end if + --max-kocc $advanced_options.max_kocc + #if $advanced_options.hg_size + --hg-size $advanced_options.hg_size + #end if + #end if #if str($assembly_options.assembly_selector) == 'set': -a $assembly_options.cleaning_rounds @@ -64,6 +70,9 @@ -y $assembly_options.min_overlap $assembly_options.disable_post_join $assembly_options.ignore_error_corrected + #if $assembly_options.hom_cov + --hom-cov $assembly_options.hom_cov + #end if #end if #if str($mode.mode_selector) == 'trio': -1 hap1.yak @@ -75,8 +84,8 @@ -l $purge_options.purge_level -s $purge_options.similarity_threshold -O $purge_options.minimum_overlap - #if $purge_options.purge_cov: - --purge-cov $purge_options.purge_cov + #if $purge_options.purge_max: + --purge-max $purge_options.purge_max #end if #if $purge_options.n_hap: --n-hap $purge_options.n_hap @@ -135,12 +144,26 @@ - + + + + + + + + + + + + + + [0-9kKmMGg]+ + @@ -160,6 +183,7 @@ + @@ -178,8 +202,8 @@ - - + + @@ -386,6 +410,60 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +