Galaxy DGE outputs run at 09/09/2011 13:46:07Click on the images below to download high quality PDF versions
R log follows below
## got TCols=2 5 8; CCols=1 4 7
Loading required package: edgeR
Loading required package: methods
Calculating library sizes from column totals.
Using grid search to estimate tagwise dispersion.
Comparison of groups: control - case
Using grid search to estimate tagwise dispersion.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
Calculating library sizes from column totals.
R version 2.13.0 (2011-04-13)
Platform: x86_64-unknown-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=en_AU.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_AU.UTF-8 LC_COLLATE=en_AU.UTF-8
[5] LC_MONETARY=C LC_MESSAGES=en_AU.UTF-8
[7] LC_PAPER=en_AU.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_AU.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] methods stats graphics grDevices utils datasets base
other attached packages:
[1] edgeR_2.2.5
loaded via a namespace (and not attached):
[1] limma_3.8.2
GPL Ghostscript 8.70 (2009-07-31)
Copyright (C) 2009 Artifex Software, Inc. All rights reserved.
This software comes with NO WARRANTY: see the file PUBLIC for details.
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GPL Ghostscript 8.70 (2009-07-31)
Copyright (C) 2009 Artifex Software, Inc. All rights reserved.
This software comes with NO WARRANTY: see the file PUBLIC for details.
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rgDGE.py CL = /opt/galaxy/tools/DGE/rgDGE.py --output_html /opt/galaxy/database/job_working_directory/2/dataset_3_files --input_matrix /tmp/tmpvhI4cN/database/files/000/dataset_1.dat --treatcols 3,6,9 --treatname case --ctrlcols 2,5,8 --ctrlname control --output_tab /tmp/tmpvhI4cN/database/files/000/dataset_2.dat --output_html /tmp/tmpvhI4cN/database/files/000/dataset_3.dat --output_dir /opt/galaxy/database/job_working_directory/2/dataset_3_files --method edgeR
DGE.R CL = Rscript /opt/galaxy/database/job_working_directory/2/dataset_3_files/DGE.R /opt/galaxy/database/job_working_directory/2/dataset_3_files /tmp/tmpvhI4cN/database/files/000/dataset_1.dat case 3,6,9 control 2,5,8 /tmp/tmpvhI4cN/database/files/000/dataset_2.dat
Galaxy Rgenetics tool output rgDGE.py run at 09/09/2011 13:46:08
