| Previous changeset 7:58c8ece95b53 (2019-09-10) Next changeset 9:4b494533146a (2023-12-09) |
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Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqtk commit 690c73637e3b8be3a52fe3afc8ba6436c4bab46f" |
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modified:
macros.xml seqtk_comp.xml seqtk_cutN.xml seqtk_dropse.xml seqtk_fqchk.xml seqtk_hety.xml seqtk_listhet.xml seqtk_mergefa.xml seqtk_mergepe.xml seqtk_mutfa.xml seqtk_randbase.xml seqtk_sample.xml seqtk_seq.xml seqtk_subseq.xml seqtk_trimfq.xml test-data/seqtk_mutfa.snp |
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| diff -r 58c8ece95b53 -r 3da72230c066 macros.xml --- a/macros.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/macros.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -7,6 +7,11 @@ <yield/> </requirements> </xml> + <xml name="bio_tools"> + <xrefs> + <xref type="bio.tools">seqtk</xref> + </xrefs> + </xml> <token name="@TOOL_VERSION@">1.3</token> <token name="@AWK_VERSION@">4.2.1</token> <xml name="stdio"> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_comp.xml --- a/seqtk_comp.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_comp.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_comp" name="seqtk_comp" version="@TOOL_VERSION@.1"> <description>get the nucleotide composition of FASTA/Q</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_cutN.xml --- a/seqtk_cutN.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_cutN.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_cutN" name="seqtk_cutN" version="@TOOL_VERSION@.1"> <description>cut sequence at long N</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_dropse.xml --- a/seqtk_dropse.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_dropse.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_dropse" name="seqtk_dropse" version="@TOOL_VERSION@.1"> <description>drop unpaired from interleaved Paired End FASTA/Q</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_fqchk.xml --- a/seqtk_fqchk.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_fqchk.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_fqchk" name="seqtk_fqchk" version="@TOOL_VERSION@.1"> <description>fastq QC (base/quality summary)</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_hety.xml --- a/seqtk_hety.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_hety.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_hety" name="seqtk_hety" version="@TOOL_VERSION@.1"> <description>regional heterozygosity</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_listhet.xml --- a/seqtk_listhet.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_listhet.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_listhet" name="seqtk_listhet" version="@TOOL_VERSION@.1"> <description>extract the position of each het</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_mergefa.xml --- a/seqtk_mergefa.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_mergefa.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_mergefa" name="seqtk_mergefa" version="@TOOL_VERSION@.1"> <description>merge two FASTA/Q files</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_mergepe.xml --- a/seqtk_mergepe.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_mergepe.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_mergepe" name="seqtk_mergepe" version="@TOOL_VERSION@.1"> <description>interleave two unpaired FASTA/Q files for a paired-end file</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_mutfa.xml --- a/seqtk_mutfa.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_mutfa.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_mutfa" name="seqtk_mutfa" version="@TOOL_VERSION@.1"> <description>point mutate FASTA at specified positions</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_randbase.xml --- a/seqtk_randbase.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_randbase.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_randbase" name="seqtk_randbase" version="@TOOL_VERSION@.1"> <description>choose a random base from hets</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_sample.xml --- a/seqtk_sample.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_sample.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_sample" name="seqtk_sample" version="@TOOL_VERSION@.2"> <description>random subsample of fasta or fastq sequences</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_seq.xml --- a/seqtk_seq.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_seq.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_seq" name="seqtk_seq" version="@TOOL_VERSION@.3"> <description>common transformation of FASTA/Q</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_subseq.xml --- a/seqtk_subseq.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_subseq.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_subseq" name="seqtk_subseq" version="@TOOL_VERSION@.1"> <description>extract subsequences from FASTA/Q files</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> <requirement type="package" version="@AWK_VERSION@">gawk</requirement> |
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| diff -r 58c8ece95b53 -r 3da72230c066 seqtk_trimfq.xml --- a/seqtk_trimfq.xml Tue Sep 10 13:58:48 2019 -0400 +++ b/seqtk_trimfq.xml Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,6 +1,7 @@ <?xml version="1.0"?> <tool id="seqtk_trimfq" name="seqtk_trimfq" version="@TOOL_VERSION@.1"> <description>trim FASTQ using the Phred algorithm</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> |
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| diff -r 58c8ece95b53 -r 3da72230c066 test-data/seqtk_mutfa.snp --- a/test-data/seqtk_mutfa.snp Tue Sep 10 13:58:48 2019 -0400 +++ b/test-data/seqtk_mutfa.snp Thu Oct 14 09:22:39 2021 +0000 |
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| @@ -1,2 +1,2 @@ -test0 1 . G -test0 4 . A +test0 1 . G +test0 4 . A |