| Previous changeset 2:2f9619adab91 (2016-11-05) Next changeset 4:20f1b45dea63 (2019-11-28) |
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Commit message:
planemo upload commit f6412ce479ec7ea8984e82ea1b226a039133eea4 |
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modified:
kobas_annotate.xml kobas_identify.xml kobas_macros.xml repository_dependencies.xml |
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| diff -r 2f9619adab91 -r 83b998fa34ea kobas_annotate.xml --- a/kobas_annotate.xml Sat Nov 05 10:37:44 2016 -0400 +++ b/kobas_annotate.xml Thu Nov 10 16:21:41 2016 -0500 |
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| @@ -3,9 +3,9 @@ <macros> <import>kobas_macros.xml</import> </macros> - <requirements> - <requirement type="package" version="@KOBAS_VERSION@">kobas</requirement> - </requirements> + + <expand macro="requirements"/> + <stdio> <exit_code range="0" level="warning" description="BiopythonDeprecationWarning"/> <exit_code range="1" level="fatal" description="Bad input settings or none of the entries was annotated successfully."/> @@ -67,6 +67,7 @@ -s '$species' -e '$evalue' -r $rank + -n "\${GALAXY_SLOTS:-4}" -c $coverage #if $ortholog.only == 'YES': -z '$ortholog.species' @@ -80,7 +81,7 @@ ]]> </command> <inputs> - <param format="fasta" type="data" label="Input file" help="Input data file matching the input type." argument="--infile"/> + <param format="fasta,tabular,txt" type="data" label="Input file" help="Input data file matching the input type." argument="--infile"/> <param type="select" label="Input type" argument="--intype" help="Input data type, default fasta:pro"> <option value="fasta:pro">FASTA protein sequence</option> <option value="fasta:nuc">FASTA nucleotide sequence</option> |
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| diff -r 2f9619adab91 -r 83b998fa34ea kobas_identify.xml --- a/kobas_identify.xml Sat Nov 05 10:37:44 2016 -0400 +++ b/kobas_identify.xml Thu Nov 10 16:21:41 2016 -0500 |
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| @@ -3,9 +3,8 @@ <macros> <import>kobas_macros.xml</import> </macros> - <requirements> - <requirement type="package" version="@KOBAS_VERSION@">kobas</requirement> - </requirements> + + <expand macro="requirements"/> <command> <![CDATA[ |
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| diff -r 2f9619adab91 -r 83b998fa34ea kobas_macros.xml --- a/kobas_macros.xml Sat Nov 05 10:37:44 2016 -0400 +++ b/kobas_macros.xml Thu Nov 10 16:21:41 2016 -0500 |
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| @@ -1,6 +1,11 @@ <macros> - <token name="@WRAPPER_VERSION@">0.3</token> + <token name="@WRAPPER_VERSION@">0.4</token> <token name="@KOBAS_VERSION@">2.1.1</token> + <xml name="requirements"> + <requirements> + <requirement type="package" version="@KOBAS_VERSION@">kobas</requirement> + </requirements> + </xml> <xml name="input_kobasdb"> <param name="species" |
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| diff -r 2f9619adab91 -r 83b998fa34ea repository_dependencies.xml --- a/repository_dependencies.xml Sat Nov 05 10:37:44 2016 -0400 +++ b/repository_dependencies.xml Thu Nov 10 16:21:41 2016 -0500 |
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| @@ -1,4 +1,4 @@ <?xml version="1.0"?> <repositories description="This requires the BLAST datatype definitions (e.g. the BLAST XML format)."> - <repository changeset_revision="01b38f20197e" name="blast_datatypes" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu"/> + <repository changeset_revision="01b38f20197e" name="blast_datatypes" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" /> </repositories> |