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comparison README @ 6:7c4e86de7d19 draft

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README first
author sarahinraauzeville
date Thu, 21 Dec 2017 06:06:38 -0500
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5:f8c679b63816 6:7c4e86de7d19
1 ####################################################################
2 How ton install Tax4Fun wrapper ?
3 ####################################################################
4
5
6 1 - Add Tax4Fun files (xml, perl and R) in tools directory
7 Create a sm_Tax4Fun/ directory in tools/
8 Get Tax4Fun files in this new directory
9
10
11 2 - Add Tax4Fun wrapper in your Tool Menu
12
13 Add TAX4FUN wrapper in your tool_conf.xml file :
14 geany ../../my_config/my_tool_conf.xml &
15 in your FROGS section:
16 <tool file="my_tools/sm_Tax4Fun/sm_Tax4Fun.xml" />
17
18
19 3 - Create a symbolique link for the R script
20 ln -s /path/to/tools/sm_Tax4Fun/sm_Tax4Fun.R /path/to/bin/scripts_R/.
21 and add the path in your galaxy.ini file :
22 [workPath]
23 SCRIPTS_R_path=/galaxydata/galaxy-preprod/my_bin/scripts_R/
24
25
26 4 - Change pah to SILVA123 in sm_Tax4Fun.xml file
27
28 <param name="reference" type="select" label="Folder location of the unzipped reference data">
29 <option value="/Path/to/sm_Tax4Fun/SILVA123/">SILVA123</option>
30 <option value="No">OTHER TODO</option>
31 </param>
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