Mercurial > repos > artbio > blast_to_scaffold
changeset 2:3041f611636f draft default tip
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/main/tools/blast_to_scaffold commit 22c413141878d86ec10e80ef43ba0da792232cb0
| author | artbio |
|---|---|
| date | Wed, 11 Oct 2023 10:34:08 +0000 |
| parents | be61d0d0d622 |
| children | |
| files | blast_to_scaffold.xml |
| diffstat | 1 files changed, 13 insertions(+), 8 deletions(-) [+] |
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--- a/blast_to_scaffold.xml Wed Mar 10 19:09:31 2021 +0000 +++ b/blast_to_scaffold.xml Wed Oct 11 10:34:08 2023 +0000 @@ -3,14 +3,15 @@ <requirements> <requirement type="package" version="3.7.6">python</requirement> </requirements> -<command interpreter="python"> - blast_to_scaffold.py --sequences "$sequences" - --guideSequence "$guideSequence" - --blast-tab "$blast_tab" - --output "$output" - --scaffold_prefix "$sequences.element_identifier" - --scaffold_suffix "$guideSequence.element_identifier" -</command> +<command detect_errors="exit_code"><![CDATA[ + python $__tool_directory__/blast_to_scaffold.py + --sequences "$sequences" + --guideSequence "$guideSequence" + --blast-tab "$blast_tab" + --output "$output" + --scaffold_prefix "$sequences.element_identifier" + --scaffold_suffix "$guideSequence.element_identifier" +]]></command> <inputs> <param name="sequences" type="data" format="fasta" label="Select a fasta contigs file"/> <param name="guideSequence" type="data" format="fasta" label="Select the fasta guide sequence for scaffolding"/> @@ -47,4 +48,8 @@ This Galaxy tool was created by drosofff@gmail.com on 5/01/2016 </help> +<citations> + <citation type="doi">10.1186/s13742-015-0080-7</citation> +</citations> + </tool>