Mercurial > repos > iuc > medaka_consensus_pipeline
changeset 11:8dfe8a52346f draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/medaka commit 69eb0054f76057436094943f262a74c982d8de42"
| author | iuc |
|---|---|
| date | Sun, 12 Sep 2021 20:35:45 +0000 |
| parents | 1ca4ce7241fd |
| children | 0e9e7fcdd543 |
| files | macros.xml medaka_consensus.xml |
| diffstat | 2 files changed, 8 insertions(+), 2 deletions(-) [+] |
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--- a/macros.xml Thu Apr 22 20:25:13 2021 +0000 +++ b/macros.xml Sun Sep 12 20:35:45 2021 +0000 @@ -2,6 +2,11 @@ <macros> <token name="@TOOL_VERSION@">1.3.2</token> <token name="@PROFILE@">20.01</token> + <xml name="bio_tools"> + <xrefs> + <xref type="bio.tools">khmer</xref> + </xrefs> + </xml> <xml name="requirements"> <requirements> <requirement type="package" version="@TOOL_VERSION@">medaka</requirement> @@ -109,4 +114,4 @@ <token name="@REFERENCES@"><![CDATA[ More information are available in the `manual <https://nanoporetech.github.io/medaka/index.html>`_ and `github <https://github.com/nanoporetech/medaka>`_. ]]></token> -</macros> \ No newline at end of file +</macros>
--- a/medaka_consensus.xml Thu Apr 22 20:25:13 2021 +0000 +++ b/medaka_consensus.xml Sun Sep 12 20:35:45 2021 +0000 @@ -6,6 +6,7 @@ <expand macro="requirements"/> <expand macro="version_command"/> <command detect_errors="exit_code"><![CDATA[ +ln -s '$d' 'input_assembly.fa' && medaka_consensus ## optional -m ${m} @@ -14,7 +15,7 @@ -t \${GALAXY_SLOTS:-4} ## required -i '$i' --d '$d' +-d 'input_assembly.fa' 2>&1 | tee '$out_log' ]]></command>