Mercurial > repos > iuc > bandage
diff bandage_info.xml @ 5:d8b1027d6ce0 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bandage commit 7823462e83ff5efbcfd3161f7d471fd07da51611"
author | iuc |
---|---|
date | Sun, 12 Sep 2021 08:13:13 +0000 |
parents | b2860df42e16 |
children | b9e31c5c01c7 |
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--- a/bandage_info.xml Tue Jan 19 10:06:26 2021 +0000 +++ b/bandage_info.xml Sun Sep 12 08:13:13 2021 +0000 @@ -1,5 +1,6 @@ -<tool id="bandage_info" name="Bandage Info" version="@TOOL_VERSION@+galaxy1" profile="18.01"> +<tool id="bandage_info" name="Bandage Info" version="@TOOL_VERSION@+galaxy2" profile="18.01"> <description>determine statistics of de novo assembly graphs</description> + <expand macro="bio_tools"/> <macros> <import>macros.xml</import> </macros> @@ -12,26 +13,27 @@ info '$input_file' $tsv - > out.txt + | sed 's/:\s\+/:\t/g' + > out.tab ]]></command> <inputs> <param name="input_file" type="data" format="txt" label="Graphical Fragment Assembly" help="Supports multiple assembly graph formats: LastGraph (Velvet), FASTG (SPAdes), Trinity.fasta, ASQG and GFA."/> <param argument="--tsv" type="boolean" checked="false" truevalue="--tsv" falsevalue="" label="Output the information in a single tab-delimited line starting with the graph file"/> </inputs> <outputs> - <data name="outfile" format="txt" from_work_dir="out.txt" label="${tool.name} on ${on_string}: Assembly Graph Information"/> + <data name="outfile" format="tabular" from_work_dir="out.tab" label="${tool.name} on ${on_string}: Assembly Graph Information"/> </outputs> <tests> <test> <param name="input_file" ftype="tabular" value="gfa.tabular"/> <param name="select_mode" value="info"/> <param name="tsv" value="True"/> - <output name="outfile" ftype="txt" file="out.txt" compare="contains"/> + <output name="outfile" ftype="tabular" file="out.tab" compare="contains"/> </test> <test> <param name="input_file" ftype="tabular" value="gfa.tabular"/> <param name="select_mode" value="info"/> - <output name="outfile" ftype="txt" file="out_standard.txt"/> + <output name="outfile" ftype="tabular" file="out_standard.tab"/> </test> </tests> <help><![CDATA[ @@ -65,7 +67,7 @@ Percentage dead ends: 2.94118% Connected components: 19 Largest component (bp): 4821329 - N50 (bp): 90360 + N50 (bp): 90360 Shortest node (bp): 1 Lower quartile node (bp): 17 Median node (bp): 87 @@ -75,4 +77,3 @@ ]]></help> <expand macro="citations"/> </tool> -