| Previous changeset 3:e4821c820f7c (2022-03-30) Next changeset 5:e743b6118dae (2022-05-17) |
|
Commit message:
"planemo upload commit f40274f6b9f6a15eb4022aab21286d4c96cd8475-dirty" |
|
modified:
rpbasicdesign.xml |
| b |
| diff -r e4821c820f7c -r 9ba4dab7f0ba rpbasicdesign.xml --- a/rpbasicdesign.xml Wed Mar 30 09:04:23 2022 +0000 +++ b/rpbasicdesign.xml Fri May 06 16:26:26 2022 +0000 |
| b |
| @@ -1,7 +1,7 @@ <tool id="rpbasicdesign" name="BasicDesign" version="@TOOL_VERSION@" profile="21.09"> <description>Build DNA-BOT input files from rpSBML</description> <macros> - <token name="@TOOL_VERSION@">1.0.1</token> + <token name="@TOOL_VERSION@">1.1.0</token> </macros> <requirements> <requirement type="package" version="@TOOL_VERSION@">rpbasicdesign</requirement> @@ -21,6 +21,7 @@ --o_dnabot_dir 'out/dnabot_in' $adv.sbol_output --max_enz_per_rxn $adv.max_enz_per_rxn + --max_gene_per_construct $adv.max_gene_per_construct ]]></command> <inputs> <param name="rpsbml_file" type="data" format="sbml" label="rpSBML file" help="SBML file from which enzymes UniProt IDs will be collected."/> @@ -63,6 +64,7 @@ <param argument="--cds_permutation" type="boolean" truevalue="--cds_permutation true" falsevalue="--cds_permutation false" checked="true" label="Perform CDS permutation?" help="Whether all combinations of CDS permutation should be built." /> <param argument="--sbol_output" type="boolean" checked="false" truevalue="--o_sbol_dir out/sbol_export" falsevalue="" label="Output SBOL results?" help="Whether SBOL (Synthetic Biology Open Language) depictions of constructs should be outputted" /> <param argument="--max_enz_per_rxn" type="integer" value="1" min="1" max="99" label="Maximum number of enyzme to consider per reaction." help="Maximum number of enyzme to consider per reaction. If more enzymes are available for a given reaction, then only the last one listed in the MIRIAM annotation section will be kept."/> + <param argument="--max_gene_per_construct" type="integer" value="3" min="1" max="10" label="Maximum number of genes per construct" help="If more genes are required, i.e. more reactions are described in the input SBML file, then the execution will failed."/> </section> </inputs> <outputs> @@ -145,7 +147,8 @@ * **Backbone part ID**\ : (string) part ID to be used as the backbone. Default: BASIC_SEVA_37_CmR-p15A.1. * **Sample size**\ : (int) Number of construct to generate. Default: 88. * **Perform CDS permutation?**\ : (boolean) Whether all combinations of CDS permutation should be built Default: true. -* **Maximum number of enyzme to consider per reaction**\ : (int) Maximum number of enyzme to consider per reaction. If more enzymes are available for a given reaction, then only the last one listed in the MIRIAM annotation section will be kept. (Default: 1). +* **Maximum number of enyzme to consider per reaction**\ : (int) Maximum number of enyzme to consider per reaction. If more enzymes are available for a given reaction, then only the last one listed in the MIRIAM annotation section will be kept. (Default: 1). +* **Maximum number of genes per construct**\ : (int) If more genes are required, i.e. more reactions are described in the input SBML file, then the execution will failed. (Default: 3). Output ------ |