Mercurial > repos > iuc > presto_buildconsensus
comparison presto_buildconsensus.xml @ 4:ef31bdd0c9ed draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/presto commit 1beb51cefbe9e6edc8930c7ae0421f28e7bb93c8
| author | iuc |
|---|---|
| date | Fri, 04 Oct 2024 09:02:54 +0000 |
| parents | 1844a3d2c887 |
| children |
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| 3:1844a3d2c887 | 4:ef31bdd0c9ed |
|---|---|
| 1 <tool id="presto_buildconsensus" name="pRESTO BuildConsensus" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> | 1 <tool id="presto_buildconsensus" name="pRESTO BuildConsensus" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> |
| 2 <description>Builds a consensus sequence for each set of input sequences</description> | 2 <description>Builds a consensus sequence for each set of input sequences</description> |
| 3 <expand macro="bio_tools"/> | |
| 4 <macros> | 3 <macros> |
| 5 <import>presto_macros.xml</import> | 4 <import>presto_macros.xml</import> |
| 6 </macros> | 5 </macros> |
| 6 <expand macro="bio_tools"/> | |
| 7 | 7 |
| 8 <expand macro="requirements"/> | 8 <expand macro="requirements"/> |
| 9 | 9 |
| 10 <version_command>BuildConsensus.py --version</version_command> | 10 <version_command>BuildConsensus.py --version</version_command> |
| 11 <command detect_errors="exit_code"><![CDATA[ | 11 <command detect_errors="exit_code"><![CDATA[ |
| 85 <data name="fastq_out" format="fastq" from_work_dir="tmp_consensus-pass.fastq"/> | 85 <data name="fastq_out" format="fastq" from_work_dir="tmp_consensus-pass.fastq"/> |
| 86 <expand macro="presto-log-output"/> | 86 <expand macro="presto-log-output"/> |
| 87 </outputs> | 87 </outputs> |
| 88 | 88 |
| 89 <tests> | 89 <tests> |
| 90 <test> | 90 <test expect_num_outputs="1"> |
| 91 <param name="fastq_in" value="presto_buildconsensus_test_input.fastq"/> | 91 <param name="fastq_in" value="presto_buildconsensus_test_input.fastq"/> |
| 92 <param name="n" value="2"/> | 92 <param name="n" value="2"/> |
| 93 <param name="pf" value="PRIMER"/> | 93 <param name="pf" value="PRIMER"/> |
| 94 <param name="maxgap" value="0.5"/> | 94 <param name="maxgap" value="0.5"/> |
| 95 <param name="prcons" value="0.6"/> | 95 <param name="prcons" value="0.6"/> |
| 96 <param name="filter" value="error"/> | 96 <param name="filter" value="error"/> |
| 97 <param name="maxerror" value="0.1"/> | 97 <param name="maxerror" value="0.1"/> |
| 98 <output name="fastq_out" file="presto_buildconsensus_test_maxerror_output.fastq" sort="true"/> | 98 <output name="fastq_out" file="presto_buildconsensus_test_maxerror_output.fastq" sort="true"/> |
| 99 </test> | 99 </test> |
| 100 <test> | 100 <test expect_num_outputs="1"> |
| 101 <param name="fastq_in" value="presto_buildconsensus_test_input.fastq"/> | 101 <param name="fastq_in" value="presto_buildconsensus_test_input.fastq"/> |
| 102 <param name="n" value="2"/> | 102 <param name="n" value="2"/> |
| 103 <param name="pf" value="PRIMER"/> | 103 <param name="pf" value="PRIMER"/> |
| 104 <param name="maxgap" value="0.5"/> | 104 <param name="maxgap" value="0.5"/> |
| 105 <param name="prcons" value="0.6"/> | 105 <param name="prcons" value="0.6"/> |