| Previous changeset 0:9a7e91fc6562 (2020-06-17) Next changeset 2:bf30030e5265 (2020-09-10) |
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Commit message:
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/last commit 67b8e5adffa4015ee60b1b4a0cd220f632ba1082" |
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modified:
lastal.xml lastdb.xml lasttrain.xml |
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added:
tool_data_table_conf.xml |
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| diff -r 9a7e91fc6562 -r 86206f93fb13 lastal.xml --- a/lastal.xml Wed Jun 17 14:50:21 2020 -0400 +++ b/lastal.xml Wed Jul 22 19:50:13 2020 -0400 |
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| @@ -1,4 +1,4 @@ -<tool id="last_al" name="LASTal" version="@LAST_CONDA_VERSION@+galaxy0" profile="18.01"> +<tool id="last_al" name="LASTal" version="@LAST_CONDA_VERSION@+galaxy1" profile="18.01"> <description>finds local alignments between query sequences, and reference sequences.</description> @@ -75,15 +75,14 @@ <inputs> <expand macro="input_db"/> - <param name="query_fasta" type="data" format="FASTA" label="Queries fasta file"/> + <param name="query_fasta" type="data" format="fasta,fastqsanger,fastqsolexa,fastqillumina,tabular" label="Queries FASTA file"/> <section name="lastal" title="Lastal arguments" expanded="true"> - <param argument="-Q" type="select" multiple="false" label="Input format"> - <option value="0" selected="true">fasta or fastq-ignore</option> + <param argument="-Q" type="select" multiple="false" label="Query input format"> + <option value="0" selected="true">FASTA</option> <option value="1">fastq-sanger</option> <option value="2">fastq-solexa</option> <option value="3">fastq-illumina</option> - <option value="4">prb</option> <option value="5">PSSM</option> </param> <param argument="-f" type="select" multiple="false" label="Output format"> |
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| diff -r 9a7e91fc6562 -r 86206f93fb13 lastdb.xml --- a/lastdb.xml Wed Jun 17 14:50:21 2020 -0400 +++ b/lastdb.xml Wed Jul 22 19:50:13 2020 -0400 |
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| @@ -1,4 +1,4 @@ -<tool id="last_db" name="LASTdb" version="@LAST_CONDA_VERSION@+galaxy0" profile="18.01"> +<tool id="last_db" name="LASTdb" version="@LAST_CONDA_VERSION@+galaxy1" profile="18.01"> <description>prepares sequences for subsequent comparison and alignment using lastal.</description> @@ -36,10 +36,10 @@ ]]></command> <inputs> - <param name="input_files" type="data" format="FASTA" label="Reference(s) input files" /> + <param name="input_files" type="data" format="fasta,fastqsanger,fastqsolexa,fastqillumina" label="Reference(s) input files" /> <section name="lastdb" title="Lastdb arguments" expanded="true"> <param argument="-Q" type="select" multiple="false" label="Input format"> - <option value="0" selected="true">fasta or fastq-ignore</option> + <option value="0" selected="true">FASTA</option> <option value="1">fastq-sanger</option> <option value="2">fastq-solexa</option> <option value="3">fastq-illumina</option> |
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| diff -r 9a7e91fc6562 -r 86206f93fb13 lasttrain.xml --- a/lasttrain.xml Wed Jun 17 14:50:21 2020 -0400 +++ b/lasttrain.xml Wed Jul 22 19:50:13 2020 -0400 |
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| @@ -1,4 +1,4 @@ -<tool id="last_train" name="LAST-train" version="@LAST_CONDA_VERSION@+galaxy0" profile="18.01"> +<tool id="last_train" name="LAST-train" version="@LAST_CONDA_VERSION@+galaxy1" profile="18.01"> <description>finds the rates (probabilities) of insertion, deletion, and substitutions between two sets of sequences.</description> @@ -52,10 +52,10 @@ <inputs> <expand macro="input_db" /> - <param name="query_fasta" type="data" format="FASTA" label="Queries input files" /> + <param name="query_fasta" type="data" format="fasta,fastqsanger" label="Queries input files" /> <conditional name="init_options"> - <param argument="-Q" type="select" multiple="false" label="Input format"> - <option value="0" selected="true">Fasta or fastq-ignore</option> + <param argument="-Q" type="select" multiple="false" label="Query input format"> + <option value="0" selected="true">FASTA</option> <option value="1">Fastq-sanger</option> </param> <when value="0"> |
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| diff -r 9a7e91fc6562 -r 86206f93fb13 tool_data_table_conf.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_data_table_conf.xml Wed Jul 22 19:50:13 2020 -0400 |
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| @@ -0,0 +1,6 @@ +<tables> + <table name="lastdb" comment_char="#"> + <columns>value, dbkey, name, path</columns> + <file path="test-data/lastdb.loc" /> + </table> +</tables> |