Mercurial > repos > iuc > fasta_stats
diff fasta-stats.xml @ 1:16f1f3e2de42 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fasta_stats/ commit 02d0ae7ac02425ef454d2e42a0513887596a3b4d"
author | iuc |
---|---|
date | Wed, 21 Apr 2021 09:10:46 +0000 |
parents | 9c620a950d3a |
children | cd0874854f51 |
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--- a/fasta-stats.xml Thu Nov 22 04:16:35 2018 -0500 +++ b/fasta-stats.xml Wed Apr 21 09:10:46 2021 +0000 @@ -1,4 +1,4 @@ -<tool id="fasta-stats" name="Fasta Statistics" version="1.0.1"> +<tool id="fasta-stats" name="Fasta Statistics" version="1.0.2"> <description>Display summary statistics for a fasta file.</description> <requirements> <requirement type="package" version="5.26">perl</requirement> @@ -6,11 +6,15 @@ <command detect_errors="exit_code"><![CDATA[ perl '${__tool_directory__}/fasta-stats.pl' '$dataset' + #if $genome_size: + $genome_size + #end if > '$stats' ]]> </command> <inputs> <param name="dataset" type="data" format="fasta" label="fasta or multifasta file" help="fasta dataset to get statistics for."/> + <param name="genome_size" type="float" optional="True" label="Genome size estimate (optional)" help="Estimate of the genome size in megabases (MB). If specified, NG50 will be calculated."/> </inputs> <outputs> <data name="stats" format="tabular" label="${tool.name} on ${on_string}: Fasta summary stats"/> @@ -20,6 +24,11 @@ <param name="dataset" value="test.fasta"/> <output name="stats" file="test_out.txt"/> </test> + <test> + <param name="dataset" value="test.fasta"/> + <param name="genome_size" value="5.0"/> + <output name="stats" file="ng50_out.txt"/> + </test> </tests> <help> **Fasta Stats** @@ -36,6 +45,8 @@ GC content in % + If an optional genome size estimate is specified, then the NG50 length will also be calculated. + ------ Inputs: