Mercurial > repos > iuc > data_manager_dram_database_downloader

annotate data_manager/data_manager_dram_download.xml @ 1:40c8fc0a2bb0 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 08664fb0e31a61514b787021d54ee5464be6043d
author iuc
date Tue, 13 Sep 2022 09:08:55 +0000
parents bd342a6a5b0f
children
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bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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1 <tool id="data_manager_dram_download" name="DRAM: Download databases" version="1.3.5" tool_type="manage_data" profile="21.05">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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2 <description>required by the DRAM suite of tools</description>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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3 <requirements>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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4 <requirement type="package" version="1.3.5">dram</requirement>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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5 </requirements>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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6 <command detect_errors="exit_code"><![CDATA[
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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7 python '$__tool_directory__/data_manager_dram_download.py'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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8 --out_file '$out_file'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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9 #if str($kofam_hmm_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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10 --kofam_hmm_loc '$kofam_hmm_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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11 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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12 #if str($kofam_ko_list_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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13 --kofam_ko_list_loc '$kofam_ko_list_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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14 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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15 #if str($skip_uniref_cond.skip_uniref) == 'yes':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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16 --skip_uniref '$skip_uniref_cond.skip_uniref'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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17 #else:
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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18 #if str($skip_uniref_cond.uniref_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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19 --uniref_loc '$skip_uniref_cond.uniref_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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20 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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21 --uniref_version $skip_uniref_cond.uniref_version
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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22 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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23 #if str($pfam_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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24 --pfam_loc '$pfam_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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25 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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26 #if str($pfam_hmm_dat) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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27 --pfam_hmm_dat '$pfam_hmm_dat'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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28 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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29 #if str($dbcan_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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30 --dbcan_loc '$dbcan_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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31 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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32 #if str($dbcan_fam_activities) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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33 --dbcan_fam_activities '$dbcan_fam_activities'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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34 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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35 --dbcan_version $dbcan_version
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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36 #if str($vogdb_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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37 --vogdb_loc '$vogdb_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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38 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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39 #if str($vog_annotations) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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40 --vog_annotations '$vog_annotations'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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41 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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42 #if str($viral_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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43 --viral_loc '$viral_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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44 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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45 #if str($peptidase_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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46 --peptidase_loc '$peptidase_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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47 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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48 #if str($genome_summary_form_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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49 --genome_summary_form_loc '$genome_summary_form_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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50 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
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51 #if str($module_step_form_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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52 --module_step_form_loc '$module_step_form_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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53 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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54 #if str($etc_module_database_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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55 --etc_module_database_loc '$etc_module_database_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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56 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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57 #if str($function_heatmap_form_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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58 --function_heatmap_form_loc '$function_heatmap_form_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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59 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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60 #if str($amg_database_loc) != '':
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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61 --amg_database_loc '$amg_database_loc'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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62 #end if
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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63 --threads \${GALAXY_SLOTS:-10}
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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64 --db_version '$db_version'
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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65 ]]></command>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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66 <inputs>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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67 <param argument="--kofam_hmm_loc" type="text" value="" label="Absolute path to hmm file for KOfam (profiles.tar.gz) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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68 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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69 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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70 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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71 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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72 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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73 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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74 <param argument="--kofam_ko_list_loc" type="text" value="" label="Absolute path to KOfam ko list file (ko_list.gz) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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75 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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76 <valid initial="string.printable">
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77 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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78 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
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79 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
80 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
81
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
82 <conditional name="skip_uniref_cond">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
83 <param argument="--skip_uniref" type="select" label="Skip downloading and processing uniref?" help="Choosing Yes saves time and memory and does not impact DRAM distillation">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
84 <option value="no" selected="true">No</option>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
85 <option value="yes">Yes</option>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
86 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
87 <when value="no">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
88 <param argument="--uniref_loc" type="text" value="" label="Absolute path to uniref (uniref90.fasta.gz) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
89 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
90 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
91 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
92 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
93 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
94 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
95 <param argument="--uniref_version" type="integer" value="90" label="UniRef version to download" help="Ignored if uniref is not downloaded and processed"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
96 </when>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
97 <when value="yes"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
98 </conditional>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
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99 <param argument="--pfam_loc" type="text" value="" label="Absolute path to pfam-A full file (Pfam-A.full.gz) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
100 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
101 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
102 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
103 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
104 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
105 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
106 <param argument="--pfam_hmm_dat" type="text" value="" label="Absolute path to pfam hmm .dat file to get PF descriptions (Pfam-A.hmm.dat.gz) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
107 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
108 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
109 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
110 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
111 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
112 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
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113 <param argument="--dbcan_loc" type="text" value="" label="Absolute path to dbCAN file (dbCAN-HMMdb-V9.txt) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
114 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
115 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
116 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
117 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
118 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
119 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
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120 <param argument="--dbcan_fam_activities" type="text" value="" label="Absolute path to CAZY family activities file (CAZyDB.07302020.fam-activities.txt) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
121 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
122 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
123 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
124 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
125 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
126 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
127 <param argument="--dbcan_version" type="integer" value="10" label="Version of dbCAN to use"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
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128 <param argument="--vogdb_loc" type="text" value="" label="Absolute path to hmm file for vogdb (vog.hmm.tar.gz) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
129 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
130 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
131 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
132 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
133 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
134 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
135 <param argument="--vog_annotations" type="text" value="" label="Absolute path to vogdb annotations file (vog.annotations.tsv.gz) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
136 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
137 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
138 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
139 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
140 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
141 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
142 <param argument="--viral_loc" type="text" value="" label="Absolute path to merged viral protein faa file (viral.x.protein.faa.gz) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
143 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
144 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
145 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
146 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
147 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
148 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
149 <param argument="--peptidase_loc" type="text" value="" label="Absolute path to MEROPS peptidase fasta file (pepunit.lib) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
150 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
151 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
152 <remove value="&apos;"/>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
153 </valid>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
154 </sanitizer>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
155 </param>
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
156 <param argument="--genome_summary_form_loc" type="text" value="" label="Absolute path to genome summary form file (genome_summary_form.YYYYMMDD.tsv) if already installed" help="Leave blank to install">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
157 <sanitizer invalid_char="">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
diff changeset
158 <valid initial="string.printable">
bd342a6a5b0f planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_dram_database_downloader commit 52575ece22fcdbb6fc3aa3582ea377075aaa4db1
iuc
parents:
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159 <remove value="&apos;"/>
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160 </valid>
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161 </sanitizer>
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162 </param>
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163 <param argument="--module_step_form_loc" type="text" value="" label="Absolute path to module step form file (module_step_form.YYYYMMDD.tsv) if already installed" help="Leave blank to install">
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164 <sanitizer invalid_char="">
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165 <valid initial="string.printable">
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166 <remove value="&apos;"/>
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167 </valid>
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168 </sanitizer>
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169 </param>
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170 <param argument="--etc_module_database_loc" type="text" value="" label="Absolute path to etc module database file (etc_mdoule_database.YYYYMMDD.tsv) if already installed" help="Leave blank to install">
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171 <sanitizer invalid_char="">
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172 <valid initial="string.printable">
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173 <remove value="&apos;"/>
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174 </valid>
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175 </sanitizer>
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176 </param>
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177 <param argument="--function_heatmap_form_loc" type="text" value="" label="Absolute path to function heatmap form file (function_heatmap_form.YYYYMMDD.tsv) if already installed" help="Leave blank to install">
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178 <sanitizer invalid_char="">
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179 <valid initial="string.printable">
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180 <remove value="&apos;"/>
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181 </valid>
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182 </sanitizer>
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183 </param>
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184 <param argument="--amg_database_loc" type="text" value="" label="Absolute path to amg database file (amg_database.YYYYMMDD.tsv) if already installed" help="Leave blank to install">
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185 <sanitizer invalid_char="">
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186 <valid initial="string.printable">
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187 <remove value="&apos;"/>
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188 </valid>
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189 </sanitizer>
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190 </param>
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191 <param argument="--db_version" type="text" value="1.3.5" label="Version of DRAM databases to install">
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192 <sanitizer invalid_char="">
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193 <valid initial="string.printable">
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194 <remove value="&apos;"/>
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195 </valid>
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196 </sanitizer>
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197 </param>
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198 </inputs>
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199 <outputs>
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200 <data name="out_file" format="data_manager_json"/>
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201 </outputs>
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202 <tests>
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203 <test expect_failure="true">
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204 <param name="kofam_hmm_loc" value="profiles.tar.gz"/>
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205 <param name="kofam_ko_list_loc" value="ko_list.gz"/>
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206 <param name="skip_uniref" value="yes"/>
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207 <param name="pfam_loc" value="Pfam-A.full.gz"/>
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208 <param name="pfam_hmm_dat" value="Pfam-A.hmm.dat.gz"/>
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209 <param name="dbcan_loc" value="dbCAN-HMMdb-V9.txt"/>
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210 <param name="dbcan_fam_activities" value="CAZyDB.07302020.fam-activities.txt"/>
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211 <param name="vogdb_loc" value="vog.hmm.tar.gz"/>
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212 <param name="vog_annotations" value="vog.annotations.tsv.gz"/>
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213 <param name="viral_loc" value="viral.x.protein.faa.gz"/>
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214 <param name="peptidase_loc" value="pepunit.lib"/>
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215 <param name="genome_summary_form_loc" value="genome_summary_form.20220715.tsv"/>
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216 <param name="module_step_form_loc" value="module_step_form.20220715.tsv"/>
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217 <param name="etc_module_database_loc" value="etc_mdoule_database.20220715.tsv"/>
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218 <param name="function_heatmap_form_loc" value="function_heatmap_form.20220715.tsv"/>
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219 <param name="amg_database_loc" value="amg_database.20220715.tsv"/>
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220 <assert_stderr>
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221 <has_text text="Database location does not exist"/>
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222 </assert_stderr>
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223 </test>
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224 </tests>
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225 <help>
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226 This tool downloads and processes DRAM databases for annotation and makes them available to corresponding versions
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227 of the DRAM suite of tools.
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228
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229 See https://github.com/WrightonLabCSU/DRAM/wiki for details about DRAM.
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230 </help>
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231 <citations>
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232 <citation type="doi">10.1093/nar/gkaa621</citation>
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233 </citations>
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234 </tool>
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235