# HG changeset patch
# User kkonganti
# Date 1656528310 14400
# Node ID b928b20149a90acf4d82d3476e3c37c7cb364053
# Parent  2c910ebd043e61431e509c1ea88b75de6915cd7c
"planemo upload"

diff -r 2c910ebd043e -r b928b20149a9 cfsan_centriflaken.xml
--- a/cfsan_centriflaken.xml	Wed Jun 29 14:40:34 2022 -0400
+++ b/cfsan_centriflaken.xml	Wed Jun 29 14:45:10 2022 -0400
@@ -47,19 +47,19 @@
     ]]></command>
     <inputs>
         <param name="input" type="data_collection" collection_type="list" format="fastq,fastq.gz,fastqsanger.gz,fastqsanger" label="Input read collection" />
-        <param name="pipeline" type="select" label="CPIPES Workflow name" value="centriflaken"
+        <param name="pipeline" type="select" label="CPIPES Workflow name"
             help="centriflaken: for long reads (Nanopore or PacBio). centriflaken_hy: for short reads (paired or unpaired). Default: centriflaken">
-            <option value="centriflaken">centriflaken</option>
+            <option value="centriflaken" selected="true">centriflaken</option>
             <option value="centriflaken_hy">centriflaken_hy</option>
         </param>
-        <param name="reads_lib_layout" type="select" label="Short Read Library Layout" value="single"
+        <param name="reads_lib_layout" type="select" label="Short Read Library Layout"
             help="Leave this option as Single-End for centriflaken. If the pipeline is centriflaken_hy (i.e for short reads), what is the library layout? Default: Single-End">
-            <option value="single">Single-End</option>
+            <option value="single" selected="true">Single-End</option>
             <option value="paired">Paired-End</option>
         </param>
-        <param name="long_read_platform" type="select" label="Mention long read sequencing platform and type" value="nanopore_raw"
+        <param name="long_read_platform" type="select" label="Mention long read sequencing platform and type"
             help="THIS OPTION IS IGNORED IF THE INPUT READS ARE SHORT READS.">
-            <option value="nanopore_raw">Nanopore raw reads, pre-Guppy5 (&lt;20% error)</option>
+            <option value="nanopore_raw" selected="true">Nanopore raw reads, pre-Guppy5 (&lt;20% error)</option>
             <option value="nanopore_corr">Nanopore reads that were corrected with other methods (&lt;3% error)</option>
             <option value="nanopore_hq">Nanopore high-quality reads, Guppy5+ SUP or Q20 (5% error)</option>
             <option value="pacbio_raw">PacBio regular CLR reads (&lt;20% error)</option>
@@ -75,8 +75,8 @@
         <param name="genome_size" type="text" optional="true" value="5.5m" label="Estimated genome size" help="For example, 5m or 2.6g.">
             <validator type="regex" message="Genome size must be a float  or integer, optionally followed by the a unit prefix (kmg)">^([0-9]*[.])?[0-9]+[kmg]?$</validator>
         </param>
-        <param name="runtime_profile" type="select" label="Run time profile" value="kondagac">
-            <option value="kondagac">conda</option>
+        <param name="runtime_profile" type="select" label="Run time profile">
+            <option value="kondagac" selected="true">conda</option>
             <option value="cingularitygac">singularity</option>
         </param>
     </inputs>