Mercurial > repos > artbio > guppy_basecaller

diff guppy_basecaller.xml @ 5:dd0cccf3a62f draft

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"planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/guppy commit 067a2f51c9f4c92c72079d27321e502ca428945f"
author artbio
date Sat, 28 Nov 2020 16:21:21 +0000
parents bc53d2ba84c4
children 78d793671a9e
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line diff
--- a/guppy_basecaller.xml	Sat Nov 28 15:25:16 2020 +0000
+++ b/guppy_basecaller.xml	Sat Nov 28 16:21:21 2020 +0000
@@ -1,4 +1,4 @@
-<tool id="guppy-basecaller" name="Guppy basecaller wrapper" version="0.2.0" python_template_version="3.5">
+<tool id="guppy-basecaller" name="Guppy basecaller wrapper" version="0.2.1" python_template_version="3.5">
     <description>A simple wrapper for guppy basecaller that depends on configuration files</description>
     <requirements>
     </requirements>
@@ -18,7 +18,7 @@
                          --disable_pings
 ###                         --qscore_filtering
 ###                         --calib_detect
-        && cat *.fastq | awk '{ if (NR%4 == 2) {gsub(/U/,"T",$1); print $1} else print }' > $output_fastq
+        && cat out/*.fastq | awk '{ if (NR%4 == 2) {gsub(/U/,"T",$1); print $1} else print }' > $output_fastq
     ]]></command>
     <inputs>
         <param name="infiles" type="data_collection" format="h5" label="Fast5 input (datatype h5)" multiple="true"/>