Mercurial > repos > dereeper > sniplay
diff VCF2Hapmap/vcf2FastaAndHapmap.xml @ 10:c6640c49fd01 draft
planemo upload commit 475f4d7d8442a0d75e103af326ae5881c4d2a4ac
author | dereeper |
---|---|
date | Mon, 16 Apr 2018 09:00:24 -0400 |
parents | 98c37a5d67f4 |
children |
line wrap: on
line diff
--- a/VCF2Hapmap/vcf2FastaAndHapmap.xml Wed Feb 07 22:08:47 2018 -0500 +++ b/VCF2Hapmap/vcf2FastaAndHapmap.xml Mon Apr 16 09:00:24 2018 -0400 @@ -1,4 +1,4 @@ -<tool id="sniplay_vcf2fastaandhapmap" name="VCF to Hapmap" version="1.1.0"> +<tool id="sniplay_vcf2fastaandhapmap" name="VCF to Hapmap" version="2.0.0"> <!-- [REQUIRED] Tool description displayed after the tool name --> <description> Convert VCF to Hapmap </description> @@ -86,12 +86,12 @@ <param name="filegff" value="vcf2fastaAndHapmap-reference.gff" /> <output name="fileout" file="vcf2fastaAndHapmap-result3.hapmap" /> <output name="fileout_seq" file="vcf2fastaAndHapmap-result3.flanking.txt" /> - <output name="fileout_fa1" file="vcf2fastaAndHapmap-result3.gene_alignment.fas" /> + <output name="fileout_fa1" file="vcf2fastaAndHapmap-result3.gene_alignment.fas" compare="sim_size" delta="0"/> </test> </tests> <!-- [OPTIONAL] Help displayed in Galaxy --> - <help> + <help><![CDATA[ .. class:: infomark @@ -102,11 +102,11 @@ .. class:: infomark -**Galaxy integration** Andres Gwendoline, Institut Français de Bioinformatique. +**Galaxy integration** Provided by Southgreen & Andres Gwendoline (Institut Français de Bioinformatique) & Marcon Valentin (IFB & INRA) .. class:: infomark -**Support** For any questions, please send an e-mail to support.abims@sb-roscoff.fr +**Support** For any questions about Galaxy integration, please send an e-mail to alexis.dereeper@ird.fr --------------------------------------------------- @@ -121,28 +121,6 @@ | Convert VCF to Hapmap. Additionnaly it creates flanking sequences of variants if fasta reference is provided. | Furthermore it also creates fasta alignment of genes if GFF annotation is provided ------------------ -Workflow position ------------------ - -**Upstream tool** - -=============== ========================== ======= -Name output file(s) format -=============== ========================== ======= -VCFtools Filter VCF file VCF -=============== ========================== ======= - - -**Downstream tool** - -=============== ========================== =========== -Name input file(s) format -=============== ========================== =========== -SNP density Hapmap file tabular -=============== ========================== =========== - - ---------- Input file ---------- @@ -237,7 +215,7 @@ TCCTCAAACTTTCTTCAGCGCCTATGAATACAGCGTGCTATAGTTACGTGGGGCGTTT - </help> + ]]></help> <citations> <!-- [HELP] As DOI or BibTex entry -->