getCopyNumberExpCor Execution Log 12:37 PM Thu Jun 6, '13

Running as user: cgaadm

getCNExpCorrelation1 reducedseg file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/Gistic2_Analysis/OV-TP/3471936/all_data_by_genes.txt
getCNExpCorrelation1 mrnaexp file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mRNA_Preprocess_Median/OV-TP/3471944/OV-TP.medianexp.txt
getCNExpCorrelation1 featurename Hybridization.REF
getCNExpCorrelation1 threshold none
getCNExpCorrelation1 method pearson
getCNExpCorrelation1 cortablename OV-TP
getCNExpCorrelation1 figurename OUTPUT
getCNExpCorrelation1 qatablename STATS
writeCorReport2 type mRNA
Execution Times:
Submitted: 12:37:10 06-06-13
Completed:
Elapsed: 00 hrs 12 mins 10 secs

step 1. getCNExpCorrelation [id: 417455] Calculates the correlations between the copy number and expression data

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00287:19
reducedseg file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/Gistic2_Analysis/OV-TP/3471936/all_data_by_genes.txt
mrnaexp file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mRNA_Preprocess_Median/OV-TP/3471944/OV-TP.medianexp.txt
featurename Hybridization.REF
threshold none
method pearson
cortablename OV-TP
figurename OUTPUT
qatablename STATS
Output Files:
 OUTPUT.CORS.png
 STATS.QA.tsv
 .lsf.out
 OV-TP.CORS.tsv
 stdout.txt
Execution Times:
Submitted: 12:37:13 06-06-13
Completed: 12:49:04 06-06-13
Elapsed: 00 hrs 11 mins 51 secs

step 2. writeCorReport [id: 417456] Generates the html report based on the correlation data

    urn:lsid:broadinstitute.org:cancer.genome.analysis:00288:42
pngname OUTPUT.CORS.png
tablename OV-TP.CORS.tsv
type mRNA
qatablename STATS.QA.tsv
Output Files:
 nozzle.html
 .lsf.out
 nozzle.RData
 stdout.txt
Execution Times:
Submitted: 12:37:13 06-06-13
Completed: 12:49:18 06-06-13
Elapsed: 00 hrs 12 mins 05 secs