Mercurial > repos > matnguyen > pathogist
comparison galaxy/tools/config_builder/config_builder.xml @ 6:a39471bf7d13 draft
Update to pathogist0.3
| author | matnguyen |
|---|---|
| date | Fri, 08 Mar 2019 18:42:31 -0500 |
| parents | 343bce47219b |
| children | 4bfb3a8dd955 |
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| 5:343bce47219b | 6:a39471bf7d13 |
|---|---|
| 1 <tool id="config_builder" name="PathOGiST - Config Builder" version="1.0.0"> | 1 <tool id="config_builder" name="PathOGiST - Config Builder" version="1.0.0"> |
| 2 <description>: Creates and populates the config file to run PathOGiST</description> | 2 <description>: Creates and populates the config file to run PathOGiST</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="0.2.3">pathogist</requirement> | 4 <requirement type="package" version="0.3">pathogist</requirement> |
| 5 </requirements> | 5 </requirements> |
| 6 | 6 |
| 7 <command><![CDATA[ | 7 <command><![CDATA[ |
| 8 PATHOGIST all blank_config.yaml --new_config | |
| 9 | |
| 10 $__tool_directory__/config_builder | 8 $__tool_directory__/config_builder |
| 11 | 9 |
| 12 #if $snippy.snippy_checkbox | 10 #if $snippy.snippy_checkbox |
| 13 --snippy | 11 --snippy |
| 14 --reference $snippy.reference | 12 --reference $snippy.reference |
| 86 --method $adv_clustering.method | 84 --method $adv_clustering.method |
| 87 $adv_clustering.presolve | 85 $adv_clustering.presolve |
| 88 $adv_clustering.visualize | 86 $adv_clustering.visualize |
| 89 #end if | 87 #end if |
| 90 | 88 |
| 91 blank_config.yaml | |
| 92 $forward | 89 $forward |
| 93 $reverse | 90 $reverse |
| 94 config.yaml | 91 config.yaml |
| 95 ]]></command> | 92 ]]></command> |
| 96 | 93 |