Mercurial > repos > deepakjadmin > caret_tool2
changeset 3:f6a619aafe81 draft
Deleted selected files
| author | deepakjadmin |
|---|---|
| date | Fri, 22 Jan 2016 11:57:02 -0500 |
| parents | dce3c80d5167 |
| children | 4df942aff9bb |
| files | tool2.xml |
| diffstat | 1 files changed, 0 insertions(+), 590 deletions(-) [+] |
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--- a/tool2.xml Fri Jan 22 11:46:48 2016 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,590 +0,0 @@ -<tool id="cddssddspqapsssp2" name="Create script from the template file "> -<description> - used to create script file from user given input to build a model -</description> -<requirements> - <requirement type="set_environment">CARET_TOOL2_PATH</requirement> - <requirement type="set_environment">R_ROOT_DIR</requirement> - <requirement type="package" version="3.2.0">R</requirement> - <requirement type="package" version="1.0.0">caret-tools</requirement> -</requirements> -<command interpreter="python"> -#if $OPTION11.PARAMETERS == "Advance" -modelBuilding.py --method $METHOD $RDATA --getdatainfoeval $OPTION11.GETDATAINFOEVAL --getdatainfoecho $OPTION11.GETDATAINFOECHO --getdatainforesult $OPTION11.GETDATAINFORESULT --missingfiltereval $OPTION11.CON1.MISSINGFILTEREVAL --missingfilterecho $OPTION11.CON1.MISSINGFILTERECHO --missingfilterresult $OPTION11.CON1.MISSINGFILTERRESULT --missingfilterthreshc $OPTION11.CON1.MISSINGFILTERTHRESHC --missingfilterthreshr $OPTION11.CON1.MISSINGFILTERTHRESHR --pcaeval $OPTION11.PCAEVAL --pcaecho $OPTION11.PCAECHO --pcaresult $OPTION11.PCARESULT --pcacomp $OPTION11.PCACOMP --pcaploteval $OPTION11.PCAPLOTEVAL --pcaplotecho $OPTION11.PCAPLOTECHO --pcaplotresult $OPTION11.PCAPLOTRESULT --pcaplotfig $OPTION11.PCAPLOTFIG --initialdataspliteval $OPTION11.CON2.INITIALDATASPLITEVAL --initialdatasplitecho $OPTION11.CON2.INITIALDATASPLITECHO --initialdatasplitresult $OPTION11.CON2.INITIALDATASPLITRESULT --saampling $OPTION11.CON2.SAAMPLING --percent $OPTION11.CON2.PERCENT --nzveval $OPTION11.CON3.NZVEVAL --nzvresult $OPTION11.CON3.NZVRESULT --nzvecho $OPTION11.CON3.NZVECHO --corrfiltereval $OPTION11.CON4.CORRFILTEREVAL --corrfilterresult $OPTION11.CON4.CORRFILTERRESULT --corrfilterecho $OPTION11.CON4.CORRFILTERECHO --threshholdcor $OPTION11.CON4.THRESHHOLDCOR --preproceval $OPTION11.CON5.PREPROCEVAL --preprocecho $OPTION11.CON5.PREPROCECHO --preprocresult $OPTION11.CON5.PREPROCRESULT --setupworkersecho $OPTION11.SETUPWORKERSECHO --setupworkersresult $OPTION11.SETUPWORKERSRESULT --numworkers $OPTION11.NUMWORKERS --setupresamplingecho $OPTION11.CON6.SETUPRESAMPLINGECHO --setupresamplingresult $OPTION11.CON6.SETUPRESAMPLINGRESULT --resampname $OPTION11.CON6.RESAMPNAME --resamplenumber $OPTION11.CON6.RESAMPLENUMBER --numrepeat $OPTION11.CON6.NUMREPEAT --resamplenumberpercent $OPTION11.CON6.RESAMPLENUMBERPERCENT --setupgridresult $OPTION11.SETUPGRIDRESULT --setupgridecho $OPTION11.SETUPGRIDECHO --setupgridsize $OPTION11.SETUPGRIDSIZE --fitmodelresult $OPTION11.FITMODELRESULT --fitmodelecho $OPTION11.FITMODELECHO --fitmodeleval $OPTION11.FITMODELEVAL --modeldescrecho $OPTION11.MODELDESCRECHO --modeldescrresult $OPTION11.MODELDESCRRESULT --resamptableecho $OPTION11.RESAMPTABLEECHO --resamptableresult $OPTION11.RESAMPTABLERESULT --profileplotecho $OPTION11.PROFILEPLOTECHO --profileplotfig $OPTION11.PROFILEPLOTFIG --stopworkersecho $OPTION11.STOPWORKERSECHO --stopworkersresult $OPTION11.STOPWORKERSRESULT --testpredresult $OPTION11.TESTPREDRESULT --testpredecho $OPTION11.TESTPREDECHO --classprobstexresult $OPTION11.CLASSPROBSTEXRESULT --classprobstexecho $OPTION11.CLASSPROBSTEXECHO --classprobstexresult1 $OPTION11.CLASSPROBSTEXRESULT1 --classprobstexecho1 $OPTION11.CLASSPROBSTEXECHO1 --savedataecho $OPTION11.SAVEDATAECHO --savedataresult $OPTION11.SAVEDATARESULT --datasets $datasets --outputmodel $model --outputresultpdf $document; -#end if -#if $OPTION11.PARAMETERS == "basic" -modelBuilding.py --method $METHOD $RDATA --getdatainfoeval $OPTION11.GETDATAINFOEVAL --getdatainfoecho $OPTION11.GETDATAINFOECHO --getdatainforesult $OPTION11.GETDATAINFORESULT --missingfiltereval $OPTION11.MISSINGFILTEREVAL --missingfilterecho $OPTION11.MISSINGFILTERECHO --missingfilterresult $OPTION11.MISSINGFILTERRESULT --missingfilterthreshc $OPTION11.MISSINGFILTERTHRESHC --missingfilterthreshr $OPTION11.MISSINGFILTERTHRESHR --pcaeval $OPTION11.PCAEVAL --pcaecho $OPTION11.PCAECHO --pcaresult $OPTION11.PCARESULT --pcacomp $OPTION11.PCACOMP --pcaploteval $OPTION11.PCAPLOTEVAL --pcaplotecho $OPTION11.PCAPLOTECHO --pcaplotresult $OPTION11.PCAPLOTRESULT --pcaplotfig $OPTION11.PCAPLOTFIG --initialdataspliteval $OPTION11.INITIALDATASPLITEVAL --initialdatasplitecho $OPTION11.INITIALDATASPLITECHO --initialdatasplitresult $OPTION11.INITIALDATASPLITRESULT --saampling $OPTION11.SAAMPLING --percent $OPTION11.PERCENT --nzveval $OPTION11.NZVEVAL --nzvresult $OPTION11.NZVRESULT --nzvecho $OPTION11.NZVECHO --corrfiltereval $OPTION11.CORRFILTEREVAL --corrfilterresult $OPTION11.CORRFILTERRESULT --corrfilterecho $OPTION11.CORRFILTERECHO --threshholdcor $OPTION11.THRESHHOLDCOR --preproceval $OPTION11.PREPROCEVAL --preprocecho $OPTION11.PREPROCECHO --preprocresult $OPTION11.PREPROCRESULT --setupworkersecho $OPTION11.SETUPWORKERSECHO --setupworkersresult $OPTION11.SETUPWORKERSRESULT --numworkers $OPTION11.NUMWORKERS --setupresamplingecho $OPTION11.SETUPRESAMPLINGECHO --setupresamplingresult $OPTION11.SETUPRESAMPLINGRESULT --resampname $OPTION11.RESAMPNAME --resamplenumber $OPTION11.RESAMPLENUMBER --numrepeat $OPTION11.NUMREPEAT --resamplenumberpercent $OPTION11.RESAMPLENUMBERPERCENT --setupgridresult $OPTION11.SETUPGRIDRESULT --setupgridecho $OPTION11.SETUPGRIDECHO --setupgridsize $OPTION11.SETUPGRIDSIZE --fitmodelresult $OPTION11.FITMODELRESULT --fitmodelecho $OPTION11.FITMODELECHO --fitmodeleval $OPTION11.FITMODELEVAL --modeldescrecho $OPTION11.MODELDESCRECHO --modeldescrresult $OPTION11.MODELDESCRRESULT --resamptableecho $OPTION11.RESAMPTABLEECHO --resamptableresult $OPTION11.RESAMPTABLERESULT --profileplotecho $OPTION11.PROFILEPLOTECHO --profileplotfig $OPTION11.PROFILEPLOTFIG --stopworkersecho $OPTION11.STOPWORKERSECHO --stopworkersresult $OPTION11.STOPWORKERSRESULT --testpredresult $OPTION11.TESTPREDRESULT --testpredecho $OPTION11.TESTPREDECHO --classprobstexresult $OPTION11.CLASSPROBSTEXRESULT --classprobstexecho $OPTION11.CLASSPROBSTEXECHO --classprobstexresult1 $OPTION11.CLASSPROBSTEXRESULT1 --classprobstexecho1 $OPTION11.CLASSPROBSTEXECHO1 --savedataecho $OPTION11.SAVEDATAECHO --savedataresult $OPTION11.SAVEDATARESULT --datasets $datasets --outputmodel $model --outputresultpdf $document; -#end if - - </command> -<inputs> - <param name="METHOD" type="select" label="SELECT METHOD FOR MODEL BUILDING" > - <option value="pls">Partial Least Square</option> - <option value="nnet">Neural Network</option> - <option value="bagFDA">bag-Fourier Discriminant Analysis</option> - <option value="blackboost">black-boost- Boosting Method</option> - <option value="earth">Earth-MARS based method</option> - <option value="rf">Random Forest</option> - <option value="RRF">RRFglobal -Variant of Random Forest</option> - <option value="svmRadial">SVM-Radial</option> - <option value="svmPoly">SVM-Polynomial</option> - <option value="ada">ada-boost</option> - <option value="glm">Generalised linear model </option> - <option value="treebag">tree based bagging method</option> - <option value="nb">Naive Bayes</option> - <option value="knn">K-nearest neighbour</option> - <option value="C5.0">C5.0 </option> - </param> - <param name="RDATA" format="RData" type="data" label="SELECT FILE CONATINING INPUT DATA" help="RData format" /> - - - <conditional name="OPTION11"> - <param name="PARAMETERS" type="select"> - <option value="basic" selected="TRUE" >Use optimized parameters </option> - <option value="Advance"> Customized parameters </option> - </param> - - <when value="basic"> - - <param name="GETDATAINFOEVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE" /> - - <param name="GETDATAINFOECHO" type="hidden" value="FALSE" help="set True if wish to print. default is False"/> - <param name="GETDATAINFORESULT" type="hidden" value="hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="MISSINGFILTEREVAL" type="hidden" value= "TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - <param name="MISSINGFILTERECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="MISSINGFILTERRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="MISSINGFILTERTHRESHC" type="hidden" value="0.2" help="For column wise default is 0.2"/> - - <param name="MISSINGFILTERTHRESHR" type="hidden" value="0.2" help="For row wise default is 0.2"/> - - <param name="PCAEVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - <param name="PCAECHO" type="hidden" value="FALSE" help="set True if wish to print. default is False"/> - - <param name="PCARESULT" type="hidden" value="hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="PCACOMP" type="hidden" value="3" help="set according to need. Default is 3"/> - - <param name="PCAPLOTEVAL" type="hidden" value="TRUE" help="set TRUE if wish to plot PCA. default is TRUE"/> - - <param name="PCAPLOTECHO" type="hidden" value="FALSE" help="Set True if wish to Print .default is False"/> - - <param name="PCAPLOTRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="PCAPLOTFIG" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - <param name="INITIALDATASPLITEVAL" type="hidden" value= "TRUE" help="set TRUE for splitting in test and train set.default is True"/> - - <param name="INITIALDATASPLITECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="SAAMPLING" type="hidden" value="garBage" help="default is with No sampling"/> - - <param name="INITIALDATASPLITRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="PERCENT" type="hidden" value="0.8" help="default is 0.8"/> - - <param name="NZVEVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - <param name="NZVRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="NZVECHO" type="hidden" value="FALSE" label="Write Code in Document" help="set True if wish to print .default is False"/> - - <param name="CORRFILTEREVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - <param name="CORRFILTERRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="CORRFILTERECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="THRESHHOLDCOR" type="hidden" value="0.75" help="set according to need .default is 0.75"/> - - <param name="PREPROCEVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - <param name="PREPROCECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="PREPROCRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="SETUPWORKERSEVAL" type="hidden" value="FALSE" help="set TRUE if wish to evaluate. default is False"/> - - <param name="SETUPWORKERSECHO" type="hidden" value="FALSE" label="Write Code in Document" help="set True if wish to print .default is False"/> - - <param name="SETUPWORKERSRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="NUMWORKERS" type="hidden" value="1" help ="default is 1"/> - - <param name="SETUPRESAMPLINGECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="SETUPRESAMPLINGRESULT" type="hidden" value="hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="RESAMPNAME" type="hidden" value="boot632" label="Set type of resampling for cross validation" help="default is boot632"/> - - <param name="RESAMPLENUMBER" type="hidden" value="10" label="Set Number of Times to Resample" help="default is 10"/> - - <param name="NUMREPEAT" type="hidden" value="3" label="Set Number of Times to run" help="default is 3"/> - - <param name="RESAMPLENUMBERPERCENT" type="hidden" value="0.75" help="default is 0.75"/> - - <param name="SETUPGRIDRESULT" type="hidden" value="hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="SETUPGRIDECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="SETUPGRIDSIZE" type="hidden" value="3" help="default is 3 "/> - - <param name="FITMODELEVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - <param name="FITMODELRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="FITMODELECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="MODELDESCRECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="MODELDESCRRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="RESAMPTABLEECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="RESAMPTABLERESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="PROFILEPLOTECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="PROFILEPLOTFIG" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - <param name="STOPWORKERSECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="STOPWORKERSRESULT" type="hidden" value= "hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="TESTPREDRESULT" type="hidden" value= "tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="TESTPREDECHO" type="hidden" value="FALSE" help="set True if wish to print. default is False"/> - - <param name="CLASSPROBSTEXRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="CLASSPROBSTEXECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False" /> - - <param name="CLASSPROBSTEXRESULT1" type="hidden" value="hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="CLASSPROBSTEXECHO1" type="hidden" value="FALSE" help="set True if wish to print .default is False" /> - - <param name="SAVEDATAECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="SAVEDATARESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - </when> - - - <when value="Advance"> - <param name="GETDATAINFOEVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE" /> - <param name="GETDATAINFOECHO" type="hidden" value="FALSE" help="set True if wish to print. default is False"/> - <param name="GETDATAINFORESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <conditional name="CON1"> - <param name="PARAMAETERS1" type="select" label="1. REMOVE MISSING VALUES FROM THE INPUT DATA"> - <option value="YES">YES </option> - <option value="NO" selected="true">NO </option> - </param> - - <when value="YES"> - <param name="MISSINGFILTEREVAL" type="hidden" value= "TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - <param name="MISSINGFILTERECHO" type="select" label="1(i). Write Code in Document" help="set True if wish to print .default is False" > - <option value="FALSE" selected="true">false</option> - <option value="TRUE">true</option> - </param> - <param name="MISSINGFILTERRESULT" type="select" label="1(ii). Write Result in document" help="Set tex if wish to write in output pdf file. default is tex"> - <option value="hide">hide-result will not written in file</option> - <option value="tex" selected="true">tex-result will written in file</option> - </param> - <param name="MISSINGFILTERTHRESHC" type="select" label="1(iii). Set Cutoff Value for Missing Data value Columwise" help="For column wise default is 0.1 means column which has missing value more than 10% will be removed "> - <option value="0.1">0.1</option> - <option value="0.2">0.2</option> - <option value="0.25">0.25</option> - <option value="0.3">0.3</option> - <option value="0.35">0.35</option> - <option value="0.4">0.4</option> - <option value="0.45">0.45</option> - <option value="0.5">0.5</option> - <option value="0.55">0.55</option> - <option value="0.6">0.6</option> - <option value="0.65">0.65</option> - <option value="0.7">0.7</option> - <option value="0.75">0.75</option> - <option value="0.8">0.8</option> - </param> - <param name="MISSINGFILTERTHRESHR" type="select" label="1(iv). Set Cutoff Value for Missing Data Value Rowwise " help="For row wise default is 0.1 means row having more than 10% missing values will be removed"> - <option value="0.1">0.1</option> - <option value="0.2">0.2</option> - <option value="0.25">0.25</option> - <option value="0.3">0.3</option> - <option value="0.35">0.35</option> - <option value="0.4">0.4</option> - <option value="0.45">0.45</option> - <option value="0.5">0.5</option> - <option value="0.55">0.55</option> - <option value="0.6">0.6</option> - <option value="0.65">0.65</option> - <option value="0.7">0.7</option> - <option value="0.75">0.75</option> - <option value="0.8">0.8</option> - </param> -</when> -<when value="NO"> - <param name="MISSINGFILTEREVAL" type="hidden" value= "FALSE" help="set TRUE if wish to evaluate. default is FALSE"/> - - <param name="MISSINGFILTERECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="MISSINGFILTERRESULT" type="hidden" value="hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="MISSINGFILTERTHRESHC" type="hidden" value="0" /> - - <param name="MISSINGFILTERTHRESHR" type="hidden" value="0" /> - -</when> -</conditional> - - <param name="PCAEVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - <param name="PCAECHO" type="hidden" value="FALSE" help="set True if wish to print. default is False"/> - - <param name="PCARESULT" type="hidden" value="hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="PCACOMP" type="select" label="2. FIND NUMBER OF PRINCIPLE COMPONENT" help="performs PCA and gives number of PC. Default is 3 "> - <option value="3">3</option> - <option value="4">4</option> - <option value="5">5</option> - <option value="6">6</option> - <option value="7">7</option> - <option value="8">8</option> - <option value="9">9</option> - <option value="10">10</option> - </param> - - <param name="PCAPLOTEVAL" type="hidden" value="TRUE" help="set TRUE if wish to plot PCA. default is TRUE"/> - - <param name="PCAPLOTECHO" type="hidden" value="FALSE" help="Set True if wish to Print .default is False"/> - - <param name="PCAPLOTRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="PCAPLOTFIG" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - - <conditional name="CON2"> - <param name="PARAMAETERS2" type="select" label="3. CUSTOMIZE PARAMETERS FOR DATA SPLITTING " help="splits data in test and train set."> - <option value="YES2">YES </option> - <option value="NO2" selected="true">NO </option> - </param> - <when value="YES2"> - <param name="INITIALDATASPLITEVAL" type="hidden" value= "TRUE" help="set TRUE for splitting in test and train set.default is True"/> - <param name="SAAMPLING" type="select" label="3(i). Select Sampling Method" help="Defualt is with No sampling. you may choose downsample or upsample" > - <option value="garBage" selected="true">No Sampling</option> - <option value="downsampling">downsample</option> - <option value="upsampling">upsample</option> - </param> - <param name="INITIALDATASPLITECHO" type="select" label="3(ii). Write Code in Document" help="set True if wish to print .default is False" > - <option value="FALSE">false</option> - <option value="TRUE">true</option> - </param> - <param name="INITIALDATASPLITRESULT" type="select" value="tex" label="3(iii). Write Result in document" help="Set tex if wish to write in output pdf file. default is tex"> - <option value="tex" selected="true">tex-result will written in file</option> - <option value="hide">hide-result will not written in file</option> - </param> - <param name="PERCENT" type="select" label="3(iv) .Set Value at Which Data Will be Splitted in Train and Test Set" help="default is 0.8"> - <option value="0.8">0.8</option> - <option value="0.75">0.75</option> - <option value="0.6">0.6</option> - <option value="0.5">0.5</option> - <option value="2">use entire data set</option> - </param> -</when> - <when value="NO2"> - <param name="INITIALDATASPLITEVAL" type="hidden" value= "TRUE" help="set TRUE for splitting in test and train set.default is True"/> - - <param name="INITIALDATASPLITECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="SAAMPLING" type="hidden" value="garBage" help="default is with No sampling"/> - - <param name="INITIALDATASPLITRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="PERCENT" type="hidden" value="0.8" help="default is 0.8"/> - -</when> -</conditional> - - <conditional name="CON3"> - <param name="PARAMAETERS3" type="select" label="4. REMOVE NEAR ZERO VARIANCE " help="removes NZV from train and test set."> - <option value="YES3">YES </option> - <option value="NO3" selected="true">NO </option> - </param> -<when value="YES3"> - - <param name="NZVEVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - - <param name="NZVECHO" type="select" label="4(i). Write Code in Document" help="set True if wish to print .default is False"> - <option value="FALSE">false</option> - <option value="TRUE">true</option> - </param> - - <param name="NZVRESULT" type="select" label="4(ii). Write Result in document" help="Set tex if wish to write result in output pdf file. default is tex"> - <option value="hide">hide-result will not written in file</option> - <option value="tex" selected="true">tex-result will written in file</option> - </param> -</when> -<when value="NO3"> - <param name="NZVEVAL" type="hidden" value="FALSE" help="set TRUE if wish to evaluate. "/> - <param name="NZVECHO" type="hidden" value="FALSE" help="set TRUE if wish to evaluate. "/> - <param name="NZVRESULT" type="hidden" value="hide" help="set TRUE if wish to evaluate."/> -</when> -</conditional> - - <!--param name="NZVECHO" type="select" label="Write Code in Document" help="set True if wish to print .default is False"> - <option value="FALSE">false</option> - <option value="TRUE">true</option> - </param--> - - <conditional name="CON4"> - <param name="PARAMAETERS4" type="select" label="5. REMOVE CORRELATED VALUES" help="removes correlated attributes from train and test set."> - <option value="YES4">YES </option> - <option value="NO4" selected="true">NO </option> - </param> -<when value="YES4"> - <param name="CORRFILTEREVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - <param name="THRESHHOLDCOR" type="select" label="5(i). cutoff for correlated Value " help="set according to need .default is 0.75 means attributes have 75% or more correlation are ommited from the data"> - <option value="0.75">0.75</option> - <option value="0.4">0.4</option> - <option value="0.45">0.45</option> - <option value="0.5">0.5</option> - <option value="0.55">0.55</option> - <option value="0.6">0.6</option> - <option value="0.65">0.65</option> - <option value="0.7">0.7</option> - <option value="0.8">0.8</option> - <option value="0.85">0.85</option> - <option value="0.9">0.9</option> - <option value="0.95">0.95</option> - </param> - <param name="CORRFILTERECHO" type="select" label="5(ii). Write Code in Document" help="set True if wish to print .default is False" > - <option value="FALSE">false</option> - <option value="TRUE">true</option> - </param> - <param name="CORRFILTERRESULT" type="select" label="5(iii). Write Result in document" help="Set tex if wish to write in output pdf file. default is tex"> - <option value="hide">hide-result will not written in file</option> - <option value="tex" selected="true">tex-result will written in file</option> - </param> -</when> -<when value="NO4"> - <param name="CORRFILTEREVAL" type="hidden" value="FALSE"/> - - <param name="CORRFILTERRESULT" type="hidden" value="hide" /> - - <param name="CORRFILTERECHO" type="hidden" value="FALSE" /> - - <param name="THRESHHOLDCOR" type="hidden" value="0" /> -</when> -</conditional> - -<conditional name="CON5"> - <param name="PARAMAETERS5" type="select" label="6. PERFORM CENTERING AND SCALING OF DATA " help="centering and scaling of train and test set."> - <option value="YES5">YES </option> - <option value="NO5" selected="true">NO </option> - </param> - -<when value="YES5"> - <param name="PREPROCEVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - <param name="PREPROCECHO" type="select" label="6(i). Write Code in Document" help="set True if wish to write code in document .default is False" > - <option value="FALSE">false</option> - <option value="TRUE">true</option> - </param> - <param name="PREPROCRESULT" type="select" label="6(ii). Write Result in document " help="Set tex if wish to write result in output pdf file. default is tex"> - <option value="hide">hide-result will not written in file</option> - <option value="tex" selected="true">tex-result will written in file</option> - </param> -</when> -<when value="NO5"> - <param name="PREPROCEVAL" type="hidden" value="FALSE"/> - - <param name="PREPROCECHO" type="hidden" value="FALSE" /> - - <param name="PREPROCRESULT" type="hidden" value="hide" /> - -</when> -</conditional> - - <param name="SETUPWORKERSEVAL" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is False"/> - <param name="SETUPWORKERSECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False" /> - <param name="NUMWORKERS" type="select" label="7. SET NUMBER OF PROCESSORS " help ="default is 1"> - <option value="1">1</option> - <option value="2">2</option> - <option value="4">4</option> - <option value="6">6</option> - <option value="8">8</option> - <option value="16">16</option> - </param> - <param name="SETUPWORKERSRESULT" type="hidden" value="hide" /> - - <conditional name="CON6"> - - <param name="PARAMAETERS6" type="select" label="8. CUSTOMIZE RESAMPLING PARAMETERS" help="resampling for cross validation"> - <option value="YES6">YES </option> - <option value="NO6" selected="true">NO </option> - </param> -<when value="YES6"> - <param name="SETUPRESAMPLINGECHO" type="select" label="8(i). write code for resampling" help="set True if wish to print .default is False"> - <option value="FALSE">false</option> - <option value="TRUE">true</option> - </param> - <param name="SETUPRESAMPLINGRESULT" type="select" label="8(ii). Write Result in document " help="Set tex if wish to write in output pdf file. default is hide"> - <option value="hide">hide-result will not written in file</option> - <option value="tex">tex-result will written in file</option> - </param> - - - <param name="RESAMPNAME" type="select" label="8(iii). select Resample method for cross validation" help="default is boot632 "> - <option value="boot632" selected="true">boot632</option> - <option value="boot">boot</option> - <option value="cv">cv</option> - <option value="repeatedcv">repeatedcv</option> - <option value="LOOCV">LOOCV - leave one out</option> - </param> - - <param name="RESAMPLENUMBER" type="select" label="8(iv). Set Number of times Resample" help="default is 10 "> - <option value="10" selected="true">10</option> - <option value="5">5</option> - <option value="15">15</option> - <option value="20">20</option> - <option value="25">25</option> - </param> - - <param name="NUMREPEAT" type="select" label="8(v). Set Number of times to repeat" help="default is 3 "> - <option value="3" selected="true">3</option> - <option value="1">1</option> - <option value="5">5</option> - <option value="10">10</option> - </param> - <param name="RESAMPLENUMBERPERCENT" type="select" label="8(vi). Set Percent splitting of data for resampling" help="default is 0.75"> - <option value="0.75" selected="true">0.75</option> - <option value="0.4">0.4</option> - <option value="0.45">0.45</option> - <option value="0.5">0.5</option> - <option value="0.55">0.55</option> - <option value="0.6">0.6</option> - <option value="0.65">0.65</option> - <option value="0.7">0.7</option> - <option value="0.8">0.8</option> - </param> -</when> -<when value="NO6"> - - <param name="SETUPRESAMPLINGECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="SETUPRESAMPLINGRESULT" type="hidden" value="hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="RESAMPNAME" type="hidden" value="boot632" label="Set type of resampling for cross validation" help="default is boot632"/> - - <param name="RESAMPLENUMBER" type="hidden" value="10" label="Set Number of Times to Resample" help="default is 10"/> - - <param name="NUMREPEAT" type="hidden" value="3" label="Set Number of Times to run" help="default is 3"/> - - <param name="RESAMPLENUMBERPERCENT" type="hidden" value="0.75" help="default is 0.75"/> - - -</when> -</conditional> - <param name="SETUPGRIDRESULT" type="hidden" value="hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="SETUPGRIDECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="SETUPGRIDSIZE" type="select" label="9. SET SIZE OF GRID" help="default is 3 "> - <option value="3">3</option> - <option value="4">4</option> - <option value="5">5</option> - <option value="6">6</option> - <option value="7">7</option> - <option value="8">8</option> - <option value="9">9</option> - <option value="10">10</option> - <option value="11">11</option> - <option value="12">12</option> - <option value="13">13</option> - <option value="14">14</option> - <option value="15">15</option> - <option value="16">16</option> - <option value="17">17</option> - <option value="18">18</option> - <option value="19">19</option> - <option value="20">20</option> - </param> - - <param name="FITMODELEVAL" type="boolean" checked="true" value="true" label="10. BUILD A MODEL AND WRITE RESULT IN DOCUMENT" help="default is TRUE"/> - <param name="FITMODELRESULT" type="hidden" value="tex" /> - <param name="FITMODELECHO" type="select" label="10(i). Write Code for model building in Document" help="set True if wish to write code in document .default is False" > - <option value="FALSE">false</option> - <option value="TRUE">true</option> - </param> - <param name="MODELDESCRECHO" type="select" label="10(ii). Write code for Model Description " help="set True if wish to print .default is False" > - <option value="FALSE">false</option> - <option value="TRUE">true</option> - </param> - <param name="MODELDESCRRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="RESAMPTABLEECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="RESAMPTABLERESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="PROFILEPLOTECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="PROFILEPLOTFIG" type="hidden" value="TRUE" help="set TRUE if wish to evaluate. default is TRUE"/> - - <param name="STOPWORKERSECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="STOPWORKERSRESULT" type="hidden" value= "hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="TESTPREDRESULT" type="hidden" value= "tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="TESTPREDECHO" type="hidden" value="FALSE" help="set True if wish to print. default is False"/> - - <param name="CLASSPROBSTEXRESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - <param name="CLASSPROBSTEXECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False" /> - - <param name="CLASSPROBSTEXRESULT1" type="hidden" value="hide" help="Set tex if wish to write in output pdf file. default is hide"/> - - <param name="CLASSPROBSTEXECHO1" type="hidden" value="FALSE" help="set True if wish to print .default is False" /> - - <param name="SAVEDATAECHO" type="hidden" value="FALSE" help="set True if wish to print .default is False"/> - - <param name="SAVEDATARESULT" type="hidden" value="tex" help="Set tex if wish to write in output pdf file. default is tex"/> - - </when> - </conditional> -</inputs> - -<outputs> - <data format="RData" label="$METHOD Model" name="model" /> - <data format="pdf" label="Document for $METHOD" name="document" /> - <data format="RData" label="Datasets used for model building " name="datasets" /> -</outputs> -<help> - -.. class:: infomark - - - -**Instruction** - ----------- - -Users may change any parameter as their requirement. For normal practice - -user required to provide only input csv file and method for model building. - -More details are given in user manual.Please click here - - - - -</help> - - - -</tool>