Mercurial > repos > jpayne > mashtree_gt
changeset 4:f2c1f3fa6e37 tip
planemo upload for repository https://toolrepo.galaxytrakr.org/view/jpayne/mashtree_gt/000000000000
| author | jpayne |
|---|---|
| date | Tue, 21 May 2024 09:04:14 -0400 |
| parents | 903a73fe724e |
| children | |
| files | mashtree-gt.xml test-data/matrix.tsv test-data/tree.dnd |
| diffstat | 3 files changed, 12 insertions(+), 8 deletions(-) [+] |
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--- a/mashtree-gt.xml Tue May 21 05:09:17 2024 -0400 +++ b/mashtree-gt.xml Tue May 21 09:04:14 2024 -0400 @@ -13,8 +13,9 @@ --sketch-size ${sketchsize} --numcpus \${GALAXY_SLOTS:-4} *.fasta - --outmatrix ${mashtree} + --outmatrix ${matrix} --seed 223 + > ${mashtree} ]]></command> <inputs> <param label="Genome assembliy collection in FASTA format" name="input" type="data_collection" format="fasta" collection_type="list" /> @@ -24,7 +25,8 @@ <param label="Sketch size" type="integer" name="sketchsize" value="10000" /> </inputs> <outputs> - <data name="mashtree" format="newick" /> + <data name="mashtree" format="newick" label="${tool.name} on ${on_string} tree" /> + <data name="matrix" format="tabular" label="${tool.name} on ${on_string} distance matrix" hidden="true" /> </outputs> <tests> <test> @@ -42,6 +44,7 @@ <param name="kmerlength" value="23" /> <param name="sketchsize" value="10000" /> <output name="mashtree" file="tree.dnd" /> + <output name="matrix" file="matrix.tsv" /> </test> </tests> <help><![CDATA[
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/matrix.tsv Tue May 21 09:04:14 2024 -0400 @@ -0,0 +1,6 @@ +. SRR13160360 SRR13160357 SRR13160359 SRR13160358 SRR13167188 +SRR13160360 0 0.00171808 0.00165962 0.00177675 0.00179146 +SRR13160357 0.00171808 0 0.0021562 0.000172763 0.00223928 +SRR13160359 0.00165962 0.0021562 0 0.00223675 0.000459344 +SRR13160358 0.00177675 0.000172763 0.00223675 0 0.00229491 +SRR13167188 0.00179146 0.00223928 0.000459344 0.00229491 0
--- a/test-data/tree.dnd Tue May 21 05:09:17 2024 -0400 +++ b/test-data/tree.dnd Tue May 21 09:04:14 2024 -0400 @@ -1,6 +1,1 @@ -. SRR13160360 SRR13167188 SRR13160358 SRR13160357 SRR13160359 -SRR13160360 0 0.00179146 0.00177675 0.00171808 0.00165962 -SRR13167188 0.00179146 0 0.00229491 0.00223928 0.000459344 -SRR13160358 0.00177675 0.00229491 0 0.000172763 0.00223675 -SRR13160357 0.00171808 0.00223928 0.000172763 0 0.0021562 -SRR13160359 0.00165962 0.000459344 0.00223675 0.0021562 0 +(SRR13160359:0.00018,(SRR13160360:0.00062,(SRR13160358:0.00012,SRR13160357:0.00005):0.00104):0.00088,SRR13167188:0.00028);