Mercurial > repos > sarahinraauzeville > tax4fun

changeset 6:7c4e86de7d19 draft

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README first
author sarahinraauzeville
date Thu, 21 Dec 2017 06:06:38 -0500
parents f8c679b63816
children 12d55003b172
files README
diffstat 1 files changed, 34 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/README	Thu Dec 21 06:06:38 2017 -0500
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+####################################################################
+		How ton install Tax4Fun wrapper ?
+####################################################################
+
+
+1 - Add Tax4Fun files (xml, perl and R) in tools directory
+Create a sm_Tax4Fun/ directory in tools/
+Get Tax4Fun files in this new directory
+
+
+2 - Add Tax4Fun wrapper in your Tool Menu
+
+Add TAX4FUN wrapper in your tool_conf.xml file :
+geany ../../my_config/my_tool_conf.xml &
+in your FROGS section:
+<tool file="my_tools/sm_Tax4Fun/sm_Tax4Fun.xml" />
+
+
+3 - Create a symbolique link for the R script
+ln -s /path/to/tools/sm_Tax4Fun/sm_Tax4Fun.R /path/to/bin/scripts_R/.
+and add the path in your galaxy.ini file :
+[workPath]
+SCRIPTS_R_path=/galaxydata/galaxy-preprod/my_bin/scripts_R/
+ 
+ 
+4 - Change pah to SILVA123 in sm_Tax4Fun.xml file
+
+ <param name="reference" type="select" label="Folder location of the unzipped reference data">
+    <option value="/Path/to/sm_Tax4Fun/SILVA123/">SILVA123</option>
+    <option value="No">OTHER TODO</option>
+</param> 
+
+
+