Mercurial > repos > nanettec > split_15
diff split_15/split7_15nodes.xml @ 0:1cbba720061a draft
Uploaded
| author | nanettec |
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| date | Fri, 18 Mar 2016 05:48:30 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/split_15/split7_15nodes.xml Fri Mar 18 05:48:30 2016 -0400 @@ -0,0 +1,68 @@ +<tool id="split7_15nodes" name="Split e-traits" version="7.0.0"> + <description> into 15 sub-files</description> + <command interpreter="python"> + split7_15nodes.py --input1 $input1 --input2 $input2 --input3 $input3 --SRmodel $SRmodel --Zmodel $Zmodel --threshold $threshold --walking_speed $walking_speed --window_size $window_size --minimum_cM_between_QTL $minimum_cM_between_QTL --output1 $output1 --output2 $output2 --output3 $output3 --output4 $output4 --output5 $output5 --output6 $output6 --output7 $output7 --output8 $output8 --output9 $output9 --output10 $output10 --output11 $output11 --output12 $output12 --output13 $output13 --output14 $output14 --output15 $output15 --output16 $output16 + </command> + <inputs> + <param label="Expression traits (etraits) file" name="input1" type="data" format="tabular" help="A tabular file with the phenotype information"></param> + <param label="Other traits (otraits) file" name="input2" type="data" format="tabular" help="A tabular file with the other trait information"></param> + <param label="Phenotype-genotype (.inp) file" name="input3" type="data" format="txt" help="A .inp file with all genotype and phenotype information"></param> + <param name="SRmodel" label="Stepwise regression model: 0=SF, 1=EB, 2=FB (default)" value="2" type="integer" help="Select the stepwise regression model to search for QTLs: 0=SF, 1=EB, 2=FB (default)"> + <validator type="in_range" message="Number can be 0, 1 or 2" min="0" max="2"/> + <validator type="expression" message="An integer is required.">int( float( value ) ) == float( value )</validator> + </param> + <param name="Zmodel" label="Model for interval mapping: 3=IM or 6=CIM (default)" value="6" type="integer" help="Select interval mapping (3) or composite interval mapping (6, default)"> + <validator type="in_range" message="Number can be 3 or 6" min="3" max="6"/> + <validator type="expression" message="An integer is required.">int( float( value ) ) == float( value )</validator> + </param> + <param name="threshold" label="LR threshold" value="11.5" type="float" help="Select a LR threshold (default=11.5)"> + <validator type="in_range" message="Float can be between 0 and 100" min="0" max="100"/> + <validator type="expression" message="A float is required.">float( float( value ) ) == float( value )</validator> + </param> + <param name="walking_speed" label="Walking speed in cM" value="2.0" type="float" help="Select a walking speed in cM (default=2.0)"> + <validator type="in_range" message="Float can be between 0 and 10" min="0" max="10"/> + <validator type="expression" message="A float is required.">float( float( value ) ) == float( value )</validator> + </param> + <param name="window_size" label="Window size in cM" value="10.0" type="float" help="Select a window size in cM (default=10.0)"> + <validator type="in_range" message="Float can be between 0 and 50" min="0" max="50"/> + <validator type="expression" message="A float is required.">float( float( value ) ) == float( value )</validator> + </param> + <param name="minimum_cM_between_QTL" label="Minimum cM between QTL" value="20.0" type="float" help="Select a minimum cM between QTL (default=20.0)"> + <validator type="in_range" message="Float can be between 0 and 50" min="0" max="50"/> + <validator type="expression" message="A float is required.">float( float( value ) ) == float( value )</validator> + </param> + </inputs> + <outputs> + <data format="txt" name="output1" /> + <data format="txt" name="output2" /> + <data format="txt" name="output3" /> + <data format="txt" name="output4" /> + <data format="txt" name="output5" /> + <data format="txt" name="output6" /> + <data format="txt" name="output7" /> + <data format="txt" name="output8" /> + <data format="txt" name="output9" /> + <data format="txt" name="output10" /> + <data format="txt" name="output11" /> + <data format="txt" name="output12" /> + <data format="txt" name="output13" /> + <data format="txt" name="output14" /> + <data format="txt" name="output15" /> + <data format="txt" name="output16" /> + </outputs> + <requirements> + </requirements> + <tests> + <test> + </test> + </tests> + <help> + +**What it does** + +Splits the input phenotype data into smaller .inp files. + +This makes 15 parallel runs on the cluster possible, to reduce the running time of large phenotype datasets (e.g. eQTL data sets). + + </help> +</tool>