| Previous changeset 2:dbf5571a8140 (2023-11-10) Next changeset 4:552cfc6ed475 (2025-08-01) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b |
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modified:
bin.xml macros.xml |
| b |
| diff -r dbf5571a8140 -r 2d1940ae33c2 bin.xml --- a/bin.xml Fri Nov 10 20:49:03 2023 +0000 +++ b/bin.xml Tue Mar 25 15:54:35 2025 +0000 |
| b |
| @@ -85,7 +85,7 @@ <param name="min_len" value="0" /> </conditional> <param name="orf_finder" value="prodigal"/> - <param name="random-seed" value="0"/> + <param name="random_seed" value="0"/> <param name="max_node" value="1"/> <param name="max_edges" value="200"/> <param name="minfasta_kbs" value="200"/> @@ -126,7 +126,7 @@ <param name="min_len" value="0" /> </conditional> <param name="orf_finder" value="prodigal"/> - <param name="random-seed" value="0"/> + <param name="random_seed" value="0"/> <param name="max_node" value="1"/> <param name="max_edges" value="200"/> <param name="minfasta_kbs" value="200"/> @@ -148,7 +148,7 @@ <param name="min_len" value="0" /> </conditional> <param name="orf_finder" value="prodigal"/> - <param name="random-seed" value="0"/> + <param name="random_seed" value="0"/> <param name="max_node" value="1"/> <param name="max_edges" value="200"/> <param name="minfasta_kbs" value="200"/> |
| b |
| diff -r dbf5571a8140 -r 2d1940ae33c2 macros.xml --- a/macros.xml Fri Nov 10 20:49:03 2023 +0000 +++ b/macros.xml Tue Mar 25 15:54:35 2025 +0000 |
| b |
| @@ -1,7 +1,7 @@ <?xml version="1.0"?> <macros> <token name="@TOOL_VERSION@">2.0.2</token> - <token name="@VERSION_SUFFIX@">0</token> + <token name="@VERSION_SUFFIX@">1</token> <token name="@PROFILE@">21.01</token> <xml name="biotools"> <xrefs> @@ -140,9 +140,16 @@ #end for #end if ]]></token> + <xml name="ref_select_cannot"> + <param name="select" type="select" label="Reference database"> + <option value="cached">Cached database</option> + <option value="taxonomy">Pre-computed taxonomy</option> + </param> + </xml> <xml name="ref_select"> <param name="select" type="select" label="Reference database"> - <option value="cached" selected="true">Cached database</option> + <option value="ml" selected="true">Use SemiBin ML function</option> + <option value="cached">Cached database</option> <option value="taxonomy">Pre-computed taxonomy</option> </param> </xml> @@ -153,6 +160,28 @@ </options> </param> </xml> + <xml name="ref-single-cannot"> + <conditional name="ref"> + <expand macro="ref_select_cannot"/> + <when value="cached"> + <expand macro="cached_db"/> + </when> + <when value="taxonomy"> + <param argument="--taxonomy-annotation-table" type="data" format="tabular" label="Pre-computed mmseqs2 format taxonomy TSV file"/> + </when> + </conditional> + </xml> + <xml name="ref-multi-cannot"> + <conditional name="ref"> + <expand macro="ref_select_cannot"/> + <when value="cached"> + <expand macro="cached_db"/> + </when> + <when value="taxonomy"> + <param argument="--taxonomy-annotation-table" type="data" format="tabular" multiple="true" label="Pre-computed mmseqs2 format taxonomy TSV file" help="One per bin file"/> + </when> + </conditional> + </xml> <xml name="ref-single"> <conditional name="ref"> <expand macro="ref_select"/> @@ -162,6 +191,7 @@ <when value="taxonomy"> <param argument="--taxonomy-annotation-table" type="data" format="tabular" label="Pre-computed mmseqs2 format taxonomy TSV file"/> </when> + <when value="ml"/> </conditional> </xml> <xml name="ref-multi"> @@ -173,6 +203,7 @@ <when value="taxonomy"> <param argument="--taxonomy-annotation-table" type="data" format="tabular" multiple="true" label="Pre-computed mmseqs2 format taxonomy TSV file" help="One per bin file"/> </when> + <when value="ml"/> </conditional> </xml> <xml name="ref_single"> @@ -184,6 +215,7 @@ <when value="taxonomy"> <param argument="--taxonomy-annotation-table" type="data" format="tabular" label="Pre-computed mmseqs2 format taxonomy TSV file"/> </when> + <when value="ml"/> </conditional> </xml> <xml name="min_len"> |