| Previous changeset 11:c59d48774d03 (2024-03-05) Next changeset 13:dbfc505896e9 (2024-10-15) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastp commit 6b8fbd9db12329e2f49eee672b185015c3e35d4f |
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modified:
fastp.xml macros.xml |
| b |
| diff -r c59d48774d03 -r d60c3f704da0 fastp.xml --- a/fastp.xml Tue Mar 05 08:41:43 2024 +0000 +++ b/fastp.xml Tue Aug 13 12:18:39 2024 +0000 |
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| @@ -1,4 +1,4 @@ -<tool id="fastp" name="fastp" version="@TOOL_VERSION@+galaxy0" profile="23.1"> +<tool id="fastp" name="fastp" version="@TOOL_VERSION@+galaxy1" profile="23.1"> <description>fast all-in-one preprocessing for FASTQ files</description> <macros> <import>macros.xml</import> @@ -73,9 +73,8 @@ #if str($single_paired.single_paired_selector).startswith('paired'): #if str($single_paired.adapter_trimming_options.adapter_sequence2): --adapter_sequence_r2 '$single_paired.adapter_trimming_options.adapter_sequence2' - #else - --detect_adapter_for_pe #end if + $single_paired.adapter_trimming_options.detect_adapter_for_pe #end if @@ -226,6 +225,7 @@ <expand macro="in" read_number="2" argument="-I"/> <expand macro="adapter_trimming_options"> <expand macro="adapter_sequence" read_number="2"/> + <expand macro="detect_adapter_for_pe" /> </expand> <expand macro="global_trimming_options_paired" /> </when> @@ -233,6 +233,7 @@ <param name="paired_input" type="data_collection" format="fastq,fastq.gz" label="Select paired collection(s)" collection_type="paired"/> <expand macro="adapter_trimming_options"> <expand macro="adapter_sequence" read_number="2"/> + <expand macro="detect_adapter_for_pe" /> </expand> <expand macro="global_trimming_options_paired" /> </when> |
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| diff -r c59d48774d03 -r d60c3f704da0 macros.xml --- a/macros.xml Tue Mar 05 08:41:43 2024 +0000 +++ b/macros.xml Tue Aug 13 12:18:39 2024 +0000 |
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| @@ -43,6 +43,10 @@ </param> </xml> + <xml name="detect_adapter_for_pe"> + <param argument="--detect_adapter_for_pe" type="boolean" truevalue="--detect_adapter_for_pe" falsevalue="" checked="false" label="Adapter sequence auto-detection for paired-end" /> + </xml> + <xml name="in" token_read_number="1" token_argument="-i"> <param name="in@READ_NUMBER@" argument="@ARGUMENT@" type="data" format="fastq,fastq.gz" label="Input @READ_NUMBER@" help="Input FASTQ file #@READ_NUMBER@"/> </xml> |