Mercurial > repos > fubar > rglasso_1_9_8

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<div class="infomessage">Galaxy Tool "rglasso" run at 19/10/2014 13:11:14</div><br/>
<div class="toolFormTitle">cox images and outputs</div>
(Click on a thumbnail image to download the corresponding original PDF image)<br/>
<div><table class="simple" cellpadding="2" cellspacing="2">
<tr>
<td><a href="cox_Coxglmnettest_glmnet_cvdeviance.pdf"><img src="cox_Coxglmnettest_glmnet_cvdeviance.png" title="Click to download a PDF of cox_Coxglmnettest_glmnet_cvdeviance.pdf" hspace="5" width="400"
                           alt="Image called cox_Coxglmnettest_glmnet_cvdeviance.pdf"/></a></td>

<td><a href="cox_Coxglmnettest_glmnetdev.pdf"><img src="cox_Coxglmnettest_glmnetdev.png" title="Click to download a PDF of cox_Coxglmnettest_glmnetdev.pdf" hspace="5" width="400"
                           alt="Image called cox_Coxglmnettest_glmnetdev.pdf"/></a></td>
</tr>

</table></div>

<div class="toolFormTitle">cox log output</div>

<pre>

[1] "All partial likelihood coefficients from Cox model at minimum lambda of 0.00138091491730048:"

3 x 1 sparse Matrix of class "dgCMatrix"

                    1

rhubarb  1.124517e-03

vegemite 1.444990e-01

apple    3.344565e-06


</pre>

<div class="toolFormTitle">rglasso log output</div>

<pre>

Loading required package: Matrix

Loading required package: methods

Loaded glmnet 1.9-8

Loaded lars 1.2

Warning messages:

1: In if (class(larsres) == "try-error") { :

  the condition has length > 1 and only the first element will be used

2: In plot.window(...) : "label" is not a graphical parameter

3: In plot.xy(xy, type, ...) : "label" is not a graphical parameter

4: In axis(side = side, at = at, labels = labels, ...) :

  "label" is not a graphical parameter

5: In axis(side = side, at = at, labels = labels, ...) :

  "label" is not a graphical parameter

6: In box(...) : "label" is not a graphical parameter

7: In title(...) : "label" is not a graphical parameter


</pre>

<div class="toolFormTitle">Other log output</div>

<pre>

## Toolfactory generated command line = Rscript - None None

[1] Cox model: Got yvar= time,status cols 1 n preds= 3 forced in= 3

[2] Cox model: Got yvar= time,status cols 2 n preds= 3 forced in= 3

[1] Results preview:

         regulator partial_likelihood forced_in glmnet_model best_lambda

rhubarb    rhubarb        0.001180324      TRUE          cox  0.01508333

vegemite  vegemite        0.093827440     FALSE          cox  0.01508333

[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

 [5] LC_MONETARY=en_AU.UTF-8    LC_MESSAGES=en_AU.UTF-8    LC_PAPER=en_AU.UTF-8       LC_NAME=C

 [9] LC_ADDRESS=C               LC_TELEPHONE=C             LC_MEASUREMENT=en_AU.UTF-8 LC_IDENTIFICATION=C

attached base packages:

[1] methods   stats     graphics  grDevices utils     datasets  base

other attached packages:

[1] lars_1.2     glmnet_1.9-8 Matrix_1.1-4

loaded via a namespace (and not attached):

[1] grid_3.1.0      lattice_0.20-29


</pre>

<div class="toolFormTitle">All output files available for downloading</div>

<div><table class="colored" cellpadding="3" cellspacing="3"><tr><th>Output File Name (click to view)</th><th>Size</th></tr>

<tr><td><a href="cox_Coxglmnettest_glmnet_cvdeviance.pdf">cox_Coxglmnettest_glmnet_cvdeviance.pdf</a></td><td>6.4 KB</td></tr>
<tr class="odd_row"><td><a href="cox_Coxglmnettest_glmnetdev.pdf">cox_Coxglmnettest_glmnetdev.pdf</a></td><td>5.2 KB</td></tr>
<tr><td><a href="cox_rglasso.log">cox_rglasso.log</a></td><td>228 B</td></tr>
<tr class="odd_row"><td><a href="rglasso.Rscript">rglasso.Rscript</a></td><td>9.8 KB</td></tr>
<tr><td><a href="rglasso_error.log">rglasso_error.log</a></td><td>671 B</td></tr>
<tr class="odd_row"><td><a href="rglasso_runner.log">rglasso_runner.log</a></td><td>1.1 KB</td></tr>
</table></div><br/>
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author	fubar
date	Fri, 19 Dec 2014 05:57:55 -0500
parents	b539dcdc6168
children	4b62ea84c318