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fh_MutSigPreprocess
-i
GBM
-b
hg18
-t
/xchip/cga1/lawrence/capture/RefSeq_exons_hg18_june2010_fix1.txt
-c
/xchip/cga1/lawrence/db/context65
-cw
/xchip/cga1/lawrence/db/context65/RefSeq_exons_hg18_june2010_terr_only.wig
-cat
4
-maf1
/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/temp/attachments/cgaadm_deadline/Axis7444690901061004105.att_dependentsValues4385638111832255675.tsv
-maflabel1
Broad
-maflabel2
WashU
-maflabel3
Baylor
-wig1
/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/temp/attachments/cgaadm_deadline/Axis314132709118845752.att_dependentsValues3295295930784697335.tsv
-p
/xchip/cga1/reference/mutsig_params/MutSig1.5.params.txt

               perform_mutsig2_analysis: 0
     use_sample_specific_mutation_rates: 1
        analyze_silent_nonsilent_ratios: 1
                 sig_calculation_method: 'projection'
                  clip_tumor_from_names: 1
                                  build: 'hg18'
    consolidate_adjacent_muts_threshold: 1
             remove_noncoding_mutations: 1
                    enforce_target_list: 0
                            target_list: [1x64 char]
                     mutation_blacklist: []
                     mutation_whitelist: []

Loading MAFs for Broad
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-02-0003-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-02-0033-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-02-0047-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-02-0055-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-02-2466-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-02-2470-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-02-2483-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-02-2485-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-02-2486-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0119-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0122-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0124-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0125-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0126-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0128-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0129-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0130-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0132-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0137-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0139-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0140-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0145-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0151-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0152-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0154-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0155-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0157-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0158-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0166-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0168-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0169-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0171-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0173-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0178-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0184-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0185-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0188-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0189-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0190-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0192-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0195-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0209-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0210-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0211-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0213-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0214-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0216-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0219-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0221-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0237-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0238-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0240-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0241-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0644-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0645-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0646-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0648-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0649-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0686-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0743-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0744-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0745-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0747-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0749-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0750-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0875-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0876-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0877-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0878-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0879-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0881-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-0882-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-1084-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-1087-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-1800-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-1801-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-1802-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2557-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2558-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2559-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2561-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2562-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2563-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2564-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2565-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2566-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2567-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2569-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-2570-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-5414-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-5415-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-5416-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-5417-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-06-5418-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0615-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0616-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0618-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0619-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0670-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0688-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0692-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0818-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0819-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0820-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0821-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0822-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0826-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0827-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0828-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-0829-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-1088-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-1089-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-1092-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-1093-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-1597-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-1598-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-1599-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-1600-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-1601-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-1602-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-3644-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-3646-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-3648-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-3649-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-3650-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-3651-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-3652-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-3653-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-5295-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-5299-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-12-5301-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0786-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0787-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0789-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0790-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0812-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0813-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0817-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0865-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0866-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0867-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-0871-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1034-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1037-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1396-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1451-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1453-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1455-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1456-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1458-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1794-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1795-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1821-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1823-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1825-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1827-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-1829-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-2554-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-14-3477-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-15-0742-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-15-1446-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-16-0846-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-16-0848-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-16-0849-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-16-0850-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-16-0861-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-16-1045-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-0957-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1385-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1386-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1387-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1388-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1389-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1390-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1786-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1787-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1788-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1789-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-1791-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-2619-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-2620-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-2621-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-2623-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-2624-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-2625-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-2629-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-5959-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-19-5960-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-26-1442-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-26-1799-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-26-5132-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-26-5133-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-26-5134-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-26-5135-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-26-5136-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-26-5139-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-1830-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-1831-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-1832-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-1833-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-1834-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-1835-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-1836-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-1837-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-1838-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-2518-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-2519-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-2521-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-2523-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-2524-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-2526-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-2527-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-27-2528-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-1745-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-1746-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-1747-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-1749-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-1750-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-1751-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-1753-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-1755-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-1757-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-1760-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-2499-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-2501-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-2502-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-2506-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-2509-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-2510-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-2513-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-2514-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5204-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5207-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5208-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5209-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5213-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5214-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5215-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5216-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5218-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5219-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-5220-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-28-6450-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-1970-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-1976-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-1979-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-1980-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-1982-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-1986-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-2615-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-2616-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-2632-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-2634-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-2638-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-32-5222-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-41-2571-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-41-2573-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-41-2575-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-41-3392-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-41-5651-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-4925-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-4926-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-4927-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-4928-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-4929-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-4931-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-4932-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-4934-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-4935-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-6191-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-6192-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-6193-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-6282-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-76-6285-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-81-5910-01.maf.txt
Loaded /xchip/gdac_data/normalized/diced/gbm/tracerel__illuminaga_dnaseq__broad_mit_edu__Level_2__Mutation_Calling__maf/broad.mit.edu_GBM.IlluminaGA_DNASeq.Level_2.1.4.0/TCGA-87-5896-01.maf.txt
Concatenating structs...

                     Annotation_Transcript: [276]
                                  BAM_file: [276]
                       COSMIC_fusion_genes: [276]
              COSMIC_overlapping_mutations: [276]
              COSMIC_tissue_types_affected: [276]
          COSMIC_total_alterations_in_gene: [276]
                                    Center: [276]
                                Chromosome: [276]
                              Codon_Change: [276]
                               Description: [276]
                                  DrugBank: [276]
                              End_position: [276]
                            Entrez_Gene_Id: [276]
                     GO_Biological_Process: [276]
                     GO_Cellular_Component: [276]
                     GO_Molecular_Function: [276]
                             Genome_Change: [276]
                               Hugo_Symbol: [276]
                  MUTSIG_Significant_Genes: [276]
                    Match_Norm_Seq_Allele1: [276]
                    Match_Norm_Seq_Allele2: [276]
             Match_Norm_Validation_Allele1: [276]
             Match_Norm_Validation_Allele2: [276]
               Matched_Norm_Sample_Barcode: [276]
                           Mutation_Status: [276]
                                NCBI_Build: [276]
                               OREGANNO_ID: [276]
                           OREGANNO_Values: [276]
                         Other_Transcripts: [276]
                            Protein_Change: [276]
                          Reference_Allele: [276]
                            Refseq_mRNA_Id: [276]
                            Refseq_prot_Id: [276]
                                     Score: [276]
                           Sequence_Source: [276]
                                 Sequencer: [276]
                          Sequencing_Phase: [276]
                            Start_position: [276]
                                    Strand: [276]
                          SwissProt_acc_Id: [276]
                        SwissProt_entry_Id: [276]
             TCGAscape_Amplification_Peaks: [276]
                  TCGAscape_Deletion_Peaks: [276]
                         Transcript_Strand: [276]
                      Tumor_Sample_Barcode: [276]
                         Tumor_Seq_Allele1: [276]
                         Tumor_Seq_Allele2: [276]
                  Tumor_Validation_Allele1: [276]
                  Tumor_Validation_Allele2: [276]
            Tumorscape_Amplification_Peaks: [276]
                 Tumorscape_Deletion_Peaks: [276]
                             UniProt_AApos: [276]
                 UniProt_Experimental_Info: [276]
                UniProt_Natural_Variations: [276]
                            UniProt_Region: [276]
                              UniProt_Site: [276]
                         Validation_Method: [276]
                         Validation_Status: [276]
                    Variant_Classification: [276]
                              Variant_Type: [276]
                       Verification_Status: [276]
                               cDNA_Change: [276]
                                     categ: [276]
                 categ_ignoring_null_categ: [276]
                                       chr: [276]
                            classification: [276]
                                 context65: [276]
                              context_orig: [276]
                                   dataset: [276]
                                  dbSNP_RS: [276]
                          dbSNP_Val_Status: [276]
                                       end: [276]
                                      gene: [276]
                                 gene_name: [276]
                      i_ACHILLES_Top_Genes: [276]
      i_CCLE_ONCOMAP_overlapping_mutations: [276]
    i_CCLE_ONCOMAP_total_mutations_in_gene: [276]
          i_CCLE_SEQ_overlapping_mutations: [276]
        i_CCLE_SEQ_total_mutations_in_gene: [276]
           i_TCGAscape_Amplification_Peaks: [276]
                i_TCGAscape_Deletion_Peaks: [276]
                         i_failure_reasons: [276]
                              i_init_t_lod: [276]
                               i_judgement: [276]
                          i_normal_best_gt: [276]
                             i_t_alt_count: [276]
                             i_t_lod_fstar: [276]
                             i_t_ref_count: [276]
                                 i_tumor_f: [276]
                                   newbase: [276]
                                   patient: [276]
                                ref_allele: [276]
                                     start: [276]
                               tum_allele1: [276]
                               tum_allele2: [276]
                                      type: [276]
                     validation_alt_allele: [276]
                         validation_method: [276]
                         validation_status: [276]
                   validation_tumor_sample: [276]
                                 ----TOTAL: [27600]
Calling preprocess_mutations...
Validation_Status:

             : [36691]
    ----TOTAL: [36691]
Not enforcing any target list.
Collapsing adjacent mutations:
Collapsed 36691 muts to 36691 muts
Getting context for chr: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 
Done.
Saved GBM.mutation_preprocessing_report.txt
  [save_struct] 98/100 99/100 100/100  [collapse] [write]
Saved GBM.maf
Total of 276 patients had both MAF and WIG data.
Saved GBM.patients.txt
Saved GBM.coverage.prepare.txt
libdir: /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/MutSigPreprocess.63.3133/
LD_LIBRARY_PATH is .:/broad/software/nonfree/Linux/redhat_5_x86_64/pkgs/matlab_2009a/runtime/glnxa64:/broad/software/nonfree/Linux/redhat_5_x86_64/pkgs/matlab_2009a/bin/glnxa64:/broad/software/nonfree/Linux/redhat_5_x86_64/pkgs/matlab_2009a/sys/os/glnxa64:/broad/software/nonfree/Linux/redhat_5_x86_64/pkgs/matlab_2009a/sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/broad/software/nonfree/Linux/redhat_5_x86_64/pkgs/matlab_2009a/sys/java/jre/glnxa64/jre/lib/amd64/server:/broad/software/nonfree/Linux/redhat_5_x86_64/pkgs/matlab_2009a/sys/java/jre/glnxa64/jre/lib/amd64/client:/broad/software/nonfree/Linux/redhat_5_x86_64/pkgs/matlab_2009a/sys/java/jre/glnxa64/jre/lib/amd64
MCR_CACHE_ROOT is  /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/48981
mFile: fh_MutSigPreprocess
executing: /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/MutSigPreprocess.63.3133/fh_MutSigPreprocess -i GBM -b hg18 -t /xchip/cga1/lawrence/capture/RefSeq_exons_hg18_june2010_fix1.txt -c /xchip/cga1/lawrence/db/context65 -cw /xchip/cga1/lawrence/db/context65/RefSeq_exons_hg18_june2010_terr_only.wig -cat 4 -maf1 /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/temp/attachments/cgaadm_deadline/Axis7444690901061004105.att_dependentsValues4385638111832255675.tsv -maflabel1 Broad -maflabel2 WashU -maflabel3 Baylor -wig1 /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/temp/attachments/cgaadm_deadline/Axis314132709118845752.att_dependentsValues3295295930784697335.tsv -p /xchip/cga1/reference/mutsig_params/MutSig1.5.params.txt
