+
+
Galaxy Tool "rglasso" run at 18/02/2015 22:06:08
+
cox images and outputs
+(Click on a thumbnail image to download the corresponding original PDF image)
+
+
+ |
+
+ |
+
+
+
+
+
cox log output
+
+
+
+[1] @@@ Cox model will be predicted at times = 3.724234,1325.40516225,2373.090418,3650.1730825,4989.405682
+
+[1] Times each predictor was selected in CV models (excluding zero count predictors)
+
+ hits_lambda_1se hits_lambda_min
+
+rhubarb 10 10
+
+vegemite 6 6
+
+[1] @@@ Results preview:
+
+ regulator partial_likelihood forced_in glmnet_model best_lambda lambdaChoice alpha
+
+rhubarb rhubarb 0.0012215 TRUE cox 0.04197 lambda.1se 0.95
+
+
+
+
+
rglasso log output
+
+
+
+Loading required package: Matrix
+
+Loading required package: methods
+
+Loaded glmnet 1.9-8
+
+Loaded lars 1.2
+
+Loading required package: splines
+
+Warning messages:
+
+1: In if (is.na(predict_at)) { :
+
+ the condition has length > 1 and only the first element will be used
+
+2: In if (class(p) == "try-error") { :
+
+ the condition has length > 1 and only the first element will be used
+
+3: In plot.window(...) : "label" is not a graphical parameter
+
+4: In plot.xy(xy, type, ...) : "label" is not a graphical parameter
+
+5: In axis(side = side, at = at, labels = labels, ...) :
+
+ "label" is not a graphical parameter
+
+6: In axis(side = side, at = at, labels = labels, ...) :
+
+ "label" is not a graphical parameter
+
+7: In box(...) : "label" is not a graphical parameter
+
+8: In title(...) : "label" is not a graphical parameter
+
+
+
+
+
Other log output
+
+
+
+## Toolfactory running rglasso as Rscript script
+
+[1] @@@ Using alpha = 0.95 for all models
+
+[1] @@@@ Input has 500 samples and 3 predictors
+
+[1] @@@ Cox model will predict yvar= status using cols= rhubarb,vegemite,apple n preds= 3 forced in= rhubarb
+
+[1] @@@ SessionInfo for this R session:
+
+R version 3.1.0 (2014-04-10)
+
+Platform: x86_64-unknown-linux-gnu (64-bit)
+
+locale:
+
+ [1] LC_CTYPE=en_AU.UTF-8 LC_NUMERIC=C LC_TIME=en_AU.UTF-8 LC_COLLATE=en_AU.UTF-8 LC_MONETARY=en_AU.UTF-8 LC_MESSAGES=en_AU.UTF-8 LC_PAPER=en_AU.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=en_AU.UTF-8 LC_IDENTIFICATION=C
+
+attached base packages:
+
+[1] splines methods stats graphics grDevices utils datasets base
+
+other attached packages:
+
+[1] pec_2.4.4 survival_2.37-7 lars_1.2 glmnet_1.9-8 Matrix_1.1-5
+
+loaded via a namespace (and not attached):
+
+[1] codetools_0.2-10 foreach_1.4.2 grid_3.1.0 iterators_1.0.7 lattice_0.20-29 lava_1.3 prodlim_1.5.1
+
+Warning messages:
+
+1: In if (is.na(predict_at)) { ... :
+
+ the condition has length > 1 and only the first element will be used
+
+2: In if (class(p) == "try-error") { ... :
+
+ the condition has length > 1 and only the first element will be used
+
+3: In plot.window(...) : "label" is not a graphical parameter
+
+4: In plot.xy(xy, type, ...) : "label" is not a graphical parameter
+
+5: In axis(side = side, at = at, labels = labels, ...) :
+
+ "label" is not a graphical parameter
+
+6: In axis(side = side, at = at, labels = labels, ...) :
+
+ "label" is not a graphical parameter
+
+7: In box(...) : "label" is not a graphical parameter
+
+8: In title(...) : "label" is not a graphical parameter
+
+
+
+
+
All output files available for downloading
+
+
+
+
+
Galaxy Tool "rg_NRI" run at 08/01/2015 16:12:57
+
rg log output
+
+
+
+Error in library("e1071") : there is no package called ‘e1071’
+
+Execution halted
+
+
+
+
+
Other log output
+/tmp/tmpq72Dni/job_working_directory/000/2/dataset_2_files/rg_NRI_runner.log is empty
+
All output files available for downloading
+
+
+