Mercurial > repos > iuc > semibin_bin

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/semibin commit 2c08a2e49a2844efe92340c5a9e9c8323e4a33d6
author iuc
date Tue, 28 Oct 2025 08:16:27 +0000
parents 1bd3c93f565f
children
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84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
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1 <tool id="semibin_bin" name="SemiBin: Group the contigs" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
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2 <description>
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3 into bins
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
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4 </description>
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5 <macros>
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6 <import>macros.xml</import>
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7 </macros>
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8 <expand macro="biotools"/>
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9 <expand macro="requirements"/>
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10 <expand macro="version"/>
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11 <command detect_errors="exit_code"><![CDATA[
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12 #import re
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
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13 @FASTA_FILES@
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14 SemiBin2 bin
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15 --input-fasta 'contigs.$input_fasta.ext'
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16 --data '$data'
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17 #if $mod.select == 'history'
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18 --model '$mod.model'
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19 #else
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20 --environment '$mod.environment'
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21 #end if
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22 --output 'output'
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23 --threads \${GALAXY_SLOTS:-1}
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24 --minfasta-kbs $minfasta_kbs
2
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25 #if $mode.select == 'single' or $mode_fasta.mode_select == 'co'
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26 $write_pre_reclustering_bins
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27 #end if
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28 --max-node $max_node
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29 --max-edges $max_edges
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30 --random-seed $random_seed
2
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31 --compression none
0
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32 @MIN_LEN@
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33 --orf-finder '$orf_finder'
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34 ]]></command>
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35 <inputs>
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36 <expand macro="mode_fasta"/>
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37 <expand macro="data"/>
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38 <conditional name="mod">
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39 <param name="select" type="select" label="Model to use">
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
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40 <option value="built-in" selected="true">Built-in model</option>
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41 <option value="history">From history</option>
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42 </param>
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43 <when value="built-in">
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44 <expand macro="environment"/>
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45 </when>
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46 <when value="history">
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47 <param argument="--model" type="data" format="h5" label="Trained semi-supervised deep learning model"/>
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48 </when>
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49 </conditional>
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50 <expand macro="min_len"/>
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51 <expand macro="orf-finder"/>
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52 <expand macro="random-seed"/>
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53 <expand macro="max-node"/>
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54 <expand macro="max-edges"/>
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55 <expand macro="minfasta-kbs"/>
2
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56 <expand macro="write_pre_reclustering_bins"/>
0
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57 </inputs>
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58 <outputs>
2
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59 <collection name="output_bins" type="list" label="${tool.name} on ${on_string}: Reconstructed bins after reclustering">
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60 <filter>not write_pre_reclustering_bins</filter>
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61 <discover_datasets pattern="(?P&lt;designation&gt;.*).fa" format="fasta" directory="output/output_bins" />
0
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62 </collection>
2
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63 <collection name="output_recluster_bins" type="list" label="${tool.name} on ${on_string}: Reclustered bins?">
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64 <filter>write_pre_reclustering_bins</filter>
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65 <discover_datasets pattern="(?P&lt;designation&gt;.*).fa" format="fasta" directory="output/output_recluster_bins" />
1
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66 </collection>
2
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67 <collection name="output_prerecluster_bins" type="list" label="${tool.name} on ${on_string}: Pre reclustered bins">
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68 <filter>write_pre_reclustering_bins</filter>
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69 <discover_datasets pattern="(?P&lt;designation&gt;.*).fa" format="fasta" directory="output/output_prerecluster_bins" />
0
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70 </collection>
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71 </outputs>
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72 <tests>
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73 <test expect_num_outputs="2">
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74 <conditional name="mode">
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75 <param name="select" value="single"/>
3
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76 <param name="input_fasta" ftype="fasta.gz" value="input_single.fasta.gz"/>
0
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77 </conditional>
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78 <param name="data" ftype="csv" value="data.csv"/>
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79 <conditional name="mod">
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80 <param name="select" value="history"/>
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81 <param name="model" ftype="h5" value="model.h5"/>
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82 </conditional>
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83 <conditional name="min_len">
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84 <param name="method" value="min-len"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
85 <param name="min_len" value="0" />
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
86 </conditional>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
87 <param name="orf_finder" value="prodigal"/>
2
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
88 <param name="random_seed" value="0"/>
0
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
89 <param name="max_node" value="1"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
90 <param name="max_edges" value="200"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
91 <param name="minfasta_kbs" value="200"/>
2
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
92 <param name="write_pre_reclustering_bins" value="true"/>
1
897bb1b6c6c7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit 59a7b7a334fd2c3aca6163c2ff11d18ef654ab9d
iuc
parents: 0
diff changeset
93 <output_collection name="output_prerecluster_bins" count="3">
2
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
94 <element name="SemiBin_0" ftype="fasta">
0
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
95 <assert_contents>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
96 <has_text text=">g1k_0"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
97 <has_text text=">g4k_9"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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98 </assert_contents>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
99 </element>
2
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
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100 <element name="SemiBin_1" ftype="fasta">
0
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
101 <assert_contents>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
102 <has_text text=">g2k_0"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
103 <has_text text=">g2k_9"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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104 </assert_contents>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
105 </element>
2
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
106 <element name="SemiBin_2" ftype="fasta">
0
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
107 <assert_contents>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
108 <has_text text=">g3k_0"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
109 <has_text text=">g3k_9"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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110 </assert_contents>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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111 </element>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
112 </output_collection>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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113 </test>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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114 <test expect_num_outputs="1">
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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115 <conditional name="mode">
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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116 <param name="select" value="single"/>
3
b8dab9f6d5f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/semibin commit 2c08a2e49a2844efe92340c5a9e9c8323e4a33d6
iuc
parents: 2
diff changeset
117 <param name="input_fasta" ftype="fasta.bz2" value="input_single.fasta.bz2"/>
0
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
118 </conditional>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
119 <param name="data" ftype="csv" value="data.csv"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
120 <conditional name="mod">
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
121 <param name="select" value="built-in"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
122 <param name="environment" value="human_gut"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
123 </conditional>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
124 <conditional name="min_len">
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
125 <param name="method" value="min-len"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
126 <param name="min_len" value="0" />
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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127 </conditional>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
128 <param name="orf_finder" value="prodigal"/>
2
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
129 <param name="random_seed" value="0"/>
0
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
130 <param name="max_node" value="1"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
131 <param name="max_edges" value="200"/>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
132 <param name="minfasta_kbs" value="200"/>
2
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
133 <param name="write_pre_reclustering_bins" value="false"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
134 <output_collection name="output_bins" count="0"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
135 </test>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
136 <test expect_num_outputs="2">
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
137 <conditional name="mode">
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
138 <param name="select" value="single"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
139 <param name="input_fasta" ftype="fasta" value="input_single.fasta"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
140 </conditional>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
141 <param name="data" ftype="csv" value="data.csv"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
142 <conditional name="mod">
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
143 <param name="select" value="history"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
144 <param name="model" ftype="h5" value="model.h5"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
145 </conditional>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
146 <conditional name="min_len">
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
147 <param name="method" value="min-len"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
148 <param name="min_len" value="0" />
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
149 </conditional>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
150 <param name="orf_finder" value="prodigal"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
151 <param name="random_seed" value="0"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
152 <param name="max_node" value="1"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
153 <param name="max_edges" value="200"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
154 <param name="minfasta_kbs" value="200"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
155 <param name="write_pre_reclustering_bins" value="true"/>
1bd3c93f565f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit a9fc83e0029266f910b549d5d1eef6a9bc3e3f7b
iuc
parents: 1
diff changeset
156 <output_collection name="output_prerecluster_bins" count="3"/>
0
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
157 </test>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
158 </tests>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
159 <help><![CDATA[
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
160 @HELP_HEADER@
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
161
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
162 Inputs
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
163 ======
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
164
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
165 @HELP_INPUT_FASTA@
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
166 @HELP_INPUT_BAM@
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
167
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
168 Outputs
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
parents:
diff changeset
169 =======
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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diff changeset
170
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
iuc
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171 @HELP_BINS@
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84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
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173 ]]></help>
84b8e9bd88aa planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/semibin commit aa9bfb2fb62547ee8bac34f0de5b3beaa0bfd1a4
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174 <expand macro="citations"/>
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175 </tool>