Mercurial > repos > devteam > kraken

annotate kraken.xml @ 2:898ded2d4fff draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
author devteam
date Wed, 15 Jul 2015 14:59:31 -0400
parents 656215d2a793
children 2ad66362ed0f
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
1 <?xml version="1.0"?>
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
2 <tool id="kraken" name="Kraken" version="1.1.0">
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
3 <description>
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
4 assign taxonomic labels to sequencing reads
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
5 </description>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
6 <macros>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
7 <import>macros.xml</import>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
8 </macros>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
9 <command>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
10 <![CDATA[
1
656215d2a793 planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb1743eafd4ca98be0148d557770ef8635cc8d4c-dirty
devteam
parents: 0
diff changeset
11 @SET_DATABASE_PATH@ &&
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
12 kraken --threads \${GALAXY_SLOTS:-1} @INPUT_DATABASE@
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
13
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
14 #if $input_sequences.is_of_type( 'fastq' ):
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
15 --fastq-input
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
16 #else:
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
17 --fasta-input
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
18 #end if
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
19
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
20 ${only_classified_output}
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
21
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
22 #if str( $quick_operation.quick ) == "yes":
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
23 --quick
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
24 --min-hits ${quick_operation.min_hits}
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
25
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
26 #end if
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
27
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
28 "$input_sequences"
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
29
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
30 #if $split_reads:
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
31 --classified-out "${classified_out}" --unclassified-out "${unclassified_out}"
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
32 #end if
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
33 --output "${output}"
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
34 ##kraken-translate --db ${kraken_database.fields.name} "${output}" > "${translated}"
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
35 ]]>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
36 </command>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
37 <inputs>
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
38 <param format="fasta,fastq" label="Input sequences" name="input_sequences" type="data" help="FASTA or FASTQ datasets"/>
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
39 <param label="Output classified and unclassified reads?" name="split_reads" type="boolean" help="Sets --unclassified-out and --classified-out"/>
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
40
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
41 <conditional name="quick_operation">
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
42 <param name="quick" type="select" label="Enable quick operation?" help="--quick; Rather than searching all k-mers in a sequence, stop classification after a specified number of database hit">
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
43 <option value="yes">Yes</option>
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
44 <option selected="True" value="no">No</option>
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
45 </param>
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
46 <when value="yes">
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
47 <param name="min_hits" type="integer" value="1" label="Number of hits required for classification" help="--min-hits; min-hits will allow you to require multiple hits before declaring a sequence classified, which can be especially useful with custom databases when testing to see if sequences either do or do not belong to a particular genome; default=1"/>
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
48 </when>
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
49 <when value="no">
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
50 <!-- Do absolutely nothing -->
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
51 </when>
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
52 </conditional>
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
53
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
54 <param name="only_classified_output" type="boolean" checked="False" truevalue="--only-classified-output" falsevalue="" label="Print no Kraken output for unclassified sequences" help="--only-classified-output"/>
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
55
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
56 <expand macro="input_database" />
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
57 </inputs>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
58 <outputs>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
59 <data format="tabular" label="${tool.name} on ${on_string}: Classified reads" name="classified_out">
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
60 <filter>(split_reads)</filter>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
61 </data>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
62 <data format="tabular" label="${tool.name} on ${on_string}: Unclassified reads" name="unclassified_out">
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
63 <filter>(split_reads)</filter>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
64 </data>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
65 <data format="tabular" label="${tool.name} on ${on_string}: Classification" name="output" />
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
66 <!--<data format="tabular" label="${tool.name} on ${on_string}: Translated classification" name="translated" />-->
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
67 </outputs>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
68 <help>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
69 <![CDATA[
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
70 **What it does**
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
71
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
72 Kraken is a taxonomic sequence classifier that assigns taxonomic labels to short DNA reads. It does this by examining the k-mers within a read and querying a database with those k-mers. This database contains a mapping of every k-mer in Kraken's genomic library to the lowest common ancestor (LCA) in a taxonomic tree of all genomes that contain that k-mer. The set of LCA taxa that correspond to the k-mers in a read are then analyzed to create a single taxonomic label for the read; this label can be any of the nodes in the taxonomic tree. Kraken is designed to be rapid, sensitive, and highly precise.
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
73
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
74 -----
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
75
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
76 **Kraken options**
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
77
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
78 The Galaxy version of Kraken implements the following options::
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
79
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
80
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
81 --fasta-input Input is FASTA format
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
82 --fastq-input Input is FASTQ format
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
83 --quick Quick operation (use first hit or hits)
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
84 --min-hits NUM In quick op., number of hits req'd for classification
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
85 NOTE: this is ignored if --quick is not specified
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
86 --unclassified-out Print unclassified sequences to filename
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
87 --classified-out Print classified sequences to filename
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
88
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
89 --only-classified-output Print no Kraken output for unclassified sequences
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
90
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
91 ------
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
92
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
93 **Output Format**
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
94
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
95 Each sequence classified by Kraken results in a single line of output. Output lines contain five tab-delimited fields; from left to right, they are::
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
96
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
97 1. "C"/"U": one letter code indicating that the sequence was either classified or unclassified.
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
98 2. The sequence ID, obtained from the FASTA/FASTQ header.
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
99 3. The taxonomy ID Kraken used to label the sequence; this is 0 if the sequence is unclassified.
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
100 4. The length of the sequence in bp.
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
101 5. A space-delimited list indicating the LCA mapping of each k-mer in the sequence. For example, "562:13 561:4 A:31 0:1 562:3" would indicate that:
0
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
102 a) the first 13 k-mers mapped to taxonomy ID #562
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
103 b) the next 4 k-mers mapped to taxonomy ID #561
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
104 c) the next 31 k-mers contained an ambiguous nucleotide
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
105 d) the next k-mer was not in the database
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
106 e) the last 3 k-mers mapped to taxonomy ID #562
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
107 ]]>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
108 </help>
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
109 <expand macro="requirements" />
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
110 <expand macro="stdio" />
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
111 <expand macro="version_command" />
7d6b55e6417e Uploaded
devteam
parents:
diff changeset
112 <expand macro="citations" />
2
898ded2d4fff planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/kraken/kraken/ commit cb6ebb843c71dcfc73aa05cc616f8e3229170108-dirty
devteam
parents: 1
diff changeset
113 </tool>