#File:"params-EG3.1-test-1+FC-ALL-JTV.map"
#"Standard JTV processing but re-zip the data at the end."
#"Revised: 4-9-2009"
#"GBS: Mon Sep 28 15:13:49 EDT 2009"
#
#"(1) Convert array names in JTV data sets to mapped array names."
-jtvFiles:"EG3.1-test-1+FC-ALL-JTV.zip"
-jtvInputDir:InputTree/CellTissue/Muscle
-jtvOutputDir:JTV/Muscle
-jtvTableDir:data.Table/
#
-jtvNamesMap:"data.Table/mAdbArraySummary.map,data.Table/EGMAP.map,Affy .CEL file (16),GSP ID (9)"
#
#"(2) Generate HTML web pages to invoke the converted JTV data."
-mapDollarsigns:$$TITLE$$,"Java TreeView - All Samples for"
-mapDollarsigns:$$TEST_OR_ALL$$,"All samples for"
-mapDollarsigns:$$TISSUE$$,"Muscle"
-mapDollarsigns:$$TESTNAME$$,"EG3.1-test-1+FC-ALL-JTV"
-mapDollarsigns:$$PAGE_LABEL$$,"Stat5MKO+GH vs WT+GH"
-mapDollarsigns:$$DESCRIPTION$$,"Muscle cells from Stat5-null and control 12-week mice with GH treatment"
-mapDollarsigns:$$GBS_DESCRIPTION$$,"Muscle: <B>EG003.1</B><BR><B>(T1+)</B>&nbsp;&nbsp;Stat5MKO+GH vs WT+GH --- fold changes &gt; 2X and p-Value&lt;0.05"
-mapDollarsigns:$$TESTNAME$$,"EG3.1-test-1+FC-ALL-JTV"
-mapDollarsigns:$$CLASS_A$$,"Samples[Stat5MKO+GH]: <TT>EG003.1-01, EG003.1-02, EG003.1-05</TT>"
-mapDollarsigns:$$CLASS_B$$,"Samples[WT+GH]: <TT>EG003.1-03, EG003.1-04, EG003.1-06</TT>"
#
-jtvHTMLgenerate
-jtvDescription:"$$DESCRIPTION$$"
-jtvButtonName:"$$TEST_OR_ALL$$ $$TISSUE$$: $$PAGE_LABEL$$"
-addProlog:"ParamScripts/prologJTV.html"
-addEpilogue:"ParamScripts/epilogueJTV.html"
-jtvCopyJTVjars:"JTVjars"
#
#"[3] Rezip the converted files"
-jtvReZipConvertedFiles
#"--- end ---"