Mercurial > repos > iuc > raven
changeset 2:3edba9afc9bc draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/raven commit a64e791889cae72cf8cf029de8c65fa35d91b16d"
| author | iuc |
|---|---|
| date | Fri, 15 Oct 2021 14:56:03 +0000 |
| parents | f8564b2d7f63 |
| children | f11b994b7eb2 |
| files | macros.xml raven.xml |
| diffstat | 2 files changed, 8 insertions(+), 4 deletions(-) [+] |
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--- a/macros.xml Mon Sep 13 19:42:19 2021 +0000 +++ b/macros.xml Fri Oct 15 14:56:03 2021 +0000 @@ -1,6 +1,6 @@ <?xml version="1.0"?> <macros> - <token name="@TOOL_VERSION@">1.5.3</token> + <token name="@TOOL_VERSION@">1.6.1</token> <token name="@PROFILE@">20.05</token> <xml name="requirements"> <requirements>
--- a/raven.xml Mon Sep 13 19:42:19 2021 +0000 +++ b/raven.xml Fri Oct 15 14:56:03 2021 +0000 @@ -25,8 +25,10 @@ ln -s '$input_reads' ./input.fq.gz && #set input = "input.fq.gz" #end if -raven -$weaken +raven +--kmer-len '$kmer_len' +--window-len '$window_len' +--frequency '$frequency' --polishing-rounds '$polishing_rounds' --match '$match' --mismatch '$mismatch' @@ -39,7 +41,9 @@ ]]></command> <inputs> <param name="input_reads" type="data" format="fasta,fastq,fasta.gz,fastq.gz"/> - <param argument="--weaken" type="boolean" truevalue="--weaken" falsevalue="" label="use larger (k, w); (for use in assembling highly accurate sequences)" checked="false"/> + <param argument="--kmer-len" type="integer" value="15" label="Length of minimizers used to find overlaps"/> + <param argument="--window-len" type="integer" value="5" label="Length of sliding window from which minimizers are sampled"/> + <param argument="--frequency" type="float" value="0.001" label="Threshold for ignoring most frequent minimizers"/> <param argument="--polishing-rounds" type="integer" value="2" min="0" label="Number of times racon polishing is invoked"/> <param argument="--match" type="integer" value="3"/> <param argument="--mismatch" type="integer" value="-5"/>