# HG changeset patch
# User bgruening
# Date 1561283676 14400
# Node ID a8d4be409446b9e1c67883dcf3ca03912b58718c
# Parent  02e3c674d9170023248e20e0c766110c14442c44
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/nanopolish commit 25c22b467760e4784e199125292927bd2274a189-dirty

diff -r 02e3c674d917 -r a8d4be409446 nanopolish_methylation.xml
--- a/nanopolish_methylation.xml	Wed Jun 19 03:45:24 2019 -0400
+++ b/nanopolish_methylation.xml	Sun Jun 23 05:54:36 2019 -0400
@@ -1,4 +1,4 @@
-<tool id="nanopolish_methylation" name="Nanopolish methylation" version="0.1.0">
+<tool id="nanopolish_methylation" name="Nanopolish methylation" version="0.11.1">
     <description>- Classify nucleotides as methylated or not.</description>
     <macros>
         <import>macros.xml</import>
@@ -55,7 +55,7 @@
     <inputs>
       <!-- index inputs -->
         <param type="data" name="input_merged" format="fasta,fastq" label="Basecalled merged reads.fa"/>
-        <param type="data" name="input_reads_raw" format="h5,fast5.tar.gz,fast5.tar.bz2,fast5.tar" label="Flat archive file of raw fast5 files"/>
+        <param type="data" name="input_reads_raw" format="fast5.tar.gz,fast5.tar.bz2,fast5.tar" label="Flat archive file of raw fast5 files"/>
 
         <!-- variants consensus inputs -->
         <param type="data" argument="-b" format="bam" label="Reads aligned to the reference genome" />
@@ -105,8 +105,8 @@
          <test>
             <param name="input_merged" ftype="fasta" value="reads.fasta" />
             <param name="input_reads_raw" ftype="fast5.tar.gz" value="fast5_files.tar.gz" />
-            <param name="reference_source_selector" value="cached" />
-            <param name="ref_file" value="draft"/>
+            <param name="reference_source_selector" value="history" />
+            <param name="ref_file" value="draft.fa"/>
             <param name="b" value="reads.sorted.bam" />
             <param name="w" value="tig00000001:200000-202000" />
             <param name="batchsize" value="512" />