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comparison kraken2.xml @ 12:269ea4b78bbb draft default tip

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planemo upload for repository https://github.com/dfornika/galaxytools/blob/master/tools/kraken2 commit 70494d589aa1990618ebc7a895e91477d41c3203-dirty
author dfornika
date Mon, 04 Mar 2019 20:22:06 -0500
parents a74785cdf5e3
children
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11:da1a2d98dab1 12:269ea4b78bbb
7 <requirement type="package" version="@TOOL_VERSION@">kraken2</requirement> 7 <requirement type="package" version="@TOOL_VERSION@">kraken2</requirement>
8 </requirements> 8 </requirements>
9 <version_command>kraken2 --version</version_command> 9 <version_command>kraken2 --version</version_command>
10 <command detect_errors="exit_code"> 10 <command detect_errors="exit_code">
11 <![CDATA[ 11 <![CDATA[
12 @SET_DATABASE_PATH@ &&
13 kraken2 12 kraken2
14 --threads \${GALAXY_SLOTS:-1} 13 --threads \${GALAXY_SLOTS:-1}
15 --db '$kraken2_database' 14 --db '${kraken2_database.fields.path}'
16 #if $single_paired.single_paired_selector == 'yes' 15 #if $single_paired.single_paired_selector == 'yes'
17 '${single_paired.forward_input}' '${single_paired.reverse_input}' 16 '${single_paired.forward_input}' '${single_paired.reverse_input}'
18 #elif $single_paired.single_paired_selector == "collection": 17 #elif $single_paired.single_paired_selector == "collection":
19 '${single_paired.input_pair.forward}' '${single_paired.input_pair.reverse}' 18 '${single_paired.input_pair.forward}' '${single_paired.input_pair.reverse}'
20 #else: 19 #else: