calling:  bsub -r -R select[tmp>1000 && scratch>1] -q cga -cwd /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1 -E cd "/xchip/tcga" && cd "/xchip/cga" -e prepare.err -oo prepare.out -K -R rusage[mem=4] -P test python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Prepare.py /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/ 1 0.001 /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223484/clusterFiles.tar /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223484/config.txt /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223484/configEM.txt /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223484/jobs.sh /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223484/templateEM.sh /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223484/params0.txt
Started submitting scatter jobs at Thu Nov  8 13:42:34 2012
calling:  bsub -r -R rusage[mem=4] -R select[tmp>1000 && scratch>1] -q cga -P test -sp 65 -cwd /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000001 -E rm -rf /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000001/*; cd "/xchip/tcga" && cd "/xchip/cga" -Q EXCLUDE(167) -e scatter.err -o scatter.out -J scatter_223485   python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Scatter.py   /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_36_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_36_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_49_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_49_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_61_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_61_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_41_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_41_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_7_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_7_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_79_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_79_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_124_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_124_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_14_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_14_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_100_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_100_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_93_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_93_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_86_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_86_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_46_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_46_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_123_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_123_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_80_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_80_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_15_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_15_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_39_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_39_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_89_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_89_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_127_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_127_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_13_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_13_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_75_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_75_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b0_23_learned_parameters.fa -s 0,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b1_23_learned_parameters.fa -s 1,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b2_23_learned_parameters.fa -s 2,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b3_23_learned_parameters.fa -s 3,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b4_23_learned_parameters.fa -s 4,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b5_23_learned_parameters.fa -s 5,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b6_23_learned_parameters.fa -s 6,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b7_23_learned_parameters.fa -s 7,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b8_23_learned_parameters.fa -s 8,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b9_23_learned_parameters.fa -s 9,23

calling:  bsub -r -R rusage[mem=4] -R select[tmp>1000 && scratch>1] -q cga -P test -sp 65 -cwd /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000002 -E rm -rf /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000002/*; cd "/xchip/tcga" && cd "/xchip/cga" -Q EXCLUDE(167) -e scatter.err -o scatter.out -J scatter_223485   python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Scatter.py   /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b10_23_learned_parameters.fa -s 10,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b11_23_learned_parameters.fa -s 11,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b12_23_learned_parameters.fa -s 12,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b13_23_learned_parameters.fa -s 13,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b14_23_learned_parameters.fa -s 14,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b15_23_learned_parameters.fa -s 15,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b16_23_learned_parameters.fa -s 16,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b17_23_learned_parameters.fa -s 17,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b18_23_learned_parameters.fa -s 18,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b19_23_learned_parameters.fa -s 19,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b20_23_learned_parameters.fa -s 20,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b21_23_learned_parameters.fa -s 21,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_104_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_104_b22_23_learned_parameters.fa -s 22,23 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_82_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_82_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_119_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_119_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_32_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_32_b0_5_learned_parameters.fa -s 0,5 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_32_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_32_b1_5_learned_parameters.fa -s 1,5 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_32_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_32_b2_5_learned_parameters.fa -s 2,5 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_32_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_32_b3_5_learned_parameters.fa -s 3,5 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_32_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_32_b4_5_learned_parameters.fa -s 4,5 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_52_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_52_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_65_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_65_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_130_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_130_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_85_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_85_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_51_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_51_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_43_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_43_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_110_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_110_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_50_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_50_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_106_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_106_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_54_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_54_learned_parameters.fa

calling:  bsub -r -R rusage[mem=4] -R select[tmp>1000 && scratch>1] -q cga -P test -sp 65 -cwd /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000003 -E rm -rf /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000003/*; cd "/xchip/tcga" && cd "/xchip/cga" -Q EXCLUDE(167) -e scatter.err -o scatter.out -J scatter_223485   python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Scatter.py   /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_31_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_31_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_74_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_74_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_72_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_72_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_18_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_18_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_37_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_37_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_33_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_33_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_122_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_122_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_26_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_26_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_64_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_64_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_66_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_66_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_47_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_47_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_25_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_25_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_73_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_73_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_67_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_67_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_76_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_76_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_11_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_11_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_71_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_71_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_63_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_63_b0_2_learned_parameters.fa -s 0,2 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_63_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_63_b1_2_learned_parameters.fa -s 1,2 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_114_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_114_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_53_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_53_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_38_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_38_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b0_25_learned_parameters.fa -s 0,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b1_25_learned_parameters.fa -s 1,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b2_25_learned_parameters.fa -s 2,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b3_25_learned_parameters.fa -s 3,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b4_25_learned_parameters.fa -s 4,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b5_25_learned_parameters.fa -s 5,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b6_25_learned_parameters.fa -s 6,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b7_25_learned_parameters.fa -s 7,25

calling:  bsub -r -R rusage[mem=4] -R select[tmp>1000 && scratch>1] -q cga -P test -sp 65 -cwd /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000004 -E rm -rf /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000004/*; cd "/xchip/tcga" && cd "/xchip/cga" -Q EXCLUDE(167) -e scatter.err -o scatter.out -J scatter_223485   python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Scatter.py   /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b8_25_learned_parameters.fa -s 8,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b9_25_learned_parameters.fa -s 9,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b10_25_learned_parameters.fa -s 10,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b11_25_learned_parameters.fa -s 11,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b12_25_learned_parameters.fa -s 12,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b13_25_learned_parameters.fa -s 13,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b14_25_learned_parameters.fa -s 14,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b15_25_learned_parameters.fa -s 15,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b16_25_learned_parameters.fa -s 16,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b17_25_learned_parameters.fa -s 17,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b18_25_learned_parameters.fa -s 18,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b19_25_learned_parameters.fa -s 19,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b20_25_learned_parameters.fa -s 20,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b21_25_learned_parameters.fa -s 21,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b22_25_learned_parameters.fa -s 22,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b23_25_learned_parameters.fa -s 23,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_42_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_42_b24_25_learned_parameters.fa -s 24,25 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_134_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_134_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_94_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_94_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_44_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_44_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_111_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_111_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_115_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_115_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_12_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_12_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b0_58_learned_parameters.fa -s 0,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b1_58_learned_parameters.fa -s 1,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b2_58_learned_parameters.fa -s 2,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b3_58_learned_parameters.fa -s 3,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b4_58_learned_parameters.fa -s 4,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b5_58_learned_parameters.fa -s 5,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b6_58_learned_parameters.fa -s 6,58

calling:  bsub -r -R rusage[mem=4] -R select[tmp>1000 && scratch>1] -q cga -P test -sp 65 -cwd /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000005 -E rm -rf /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000005/*; cd "/xchip/tcga" && cd "/xchip/cga" -Q EXCLUDE(167) -e scatter.err -o scatter.out -J scatter_223485   python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Scatter.py   /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b7_58_learned_parameters.fa -s 7,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b8_58_learned_parameters.fa -s 8,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b9_58_learned_parameters.fa -s 9,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b10_58_learned_parameters.fa -s 10,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b11_58_learned_parameters.fa -s 11,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b12_58_learned_parameters.fa -s 12,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b13_58_learned_parameters.fa -s 13,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b14_58_learned_parameters.fa -s 14,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b15_58_learned_parameters.fa -s 15,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b16_58_learned_parameters.fa -s 16,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b17_58_learned_parameters.fa -s 17,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b18_58_learned_parameters.fa -s 18,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b19_58_learned_parameters.fa -s 19,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b20_58_learned_parameters.fa -s 20,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b21_58_learned_parameters.fa -s 21,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b22_58_learned_parameters.fa -s 22,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b23_58_learned_parameters.fa -s 23,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b24_58_learned_parameters.fa -s 24,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b25_58_learned_parameters.fa -s 25,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b26_58_learned_parameters.fa -s 26,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b27_58_learned_parameters.fa -s 27,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b28_58_learned_parameters.fa -s 28,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b29_58_learned_parameters.fa -s 29,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b30_58_learned_parameters.fa -s 30,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b31_58_learned_parameters.fa -s 31,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b32_58_learned_parameters.fa -s 32,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b33_58_learned_parameters.fa -s 33,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b34_58_learned_parameters.fa -s 34,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b35_58_learned_parameters.fa -s 35,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b36_58_learned_parameters.fa -s 36,58

calling:  bsub -r -R rusage[mem=4] -R select[tmp>1000 && scratch>1] -q cga -P test -sp 65 -cwd /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000006 -E rm -rf /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000006/*; cd "/xchip/tcga" && cd "/xchip/cga" -Q EXCLUDE(167) -e scatter.err -o scatter.out -J scatter_223485   python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Scatter.py   /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b37_58_learned_parameters.fa -s 37,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b38_58_learned_parameters.fa -s 38,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b39_58_learned_parameters.fa -s 39,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b40_58_learned_parameters.fa -s 40,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b41_58_learned_parameters.fa -s 41,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b42_58_learned_parameters.fa -s 42,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b43_58_learned_parameters.fa -s 43,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b44_58_learned_parameters.fa -s 44,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b45_58_learned_parameters.fa -s 45,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b46_58_learned_parameters.fa -s 46,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b47_58_learned_parameters.fa -s 47,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b48_58_learned_parameters.fa -s 48,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b49_58_learned_parameters.fa -s 49,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b50_58_learned_parameters.fa -s 50,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b51_58_learned_parameters.fa -s 51,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b52_58_learned_parameters.fa -s 52,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b53_58_learned_parameters.fa -s 53,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b54_58_learned_parameters.fa -s 54,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b55_58_learned_parameters.fa -s 55,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b56_58_learned_parameters.fa -s 56,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_58_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_58_b57_58_learned_parameters.fa -s 57,58 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_118_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_118_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_48_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_48_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_40_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_40_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_116_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_116_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_113_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_113_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_84_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_84_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_59_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_59_b0_10_learned_parameters.fa -s 0,10 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_59_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_59_b1_10_learned_parameters.fa -s 1,10 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_59_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_59_b2_10_learned_parameters.fa -s 2,10

calling:  bsub -r -R rusage[mem=4] -R select[tmp>1000 && scratch>1] -q cga -P test -sp 65 -cwd /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000007 -E rm -rf /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000007/*; cd "/xchip/tcga" && cd "/xchip/cga" -Q EXCLUDE(167) -e scatter.err -o scatter.out -J scatter_223485   python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Scatter.py   /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_59_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_59_b3_10_learned_parameters.fa -s 3,10 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_59_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_59_b4_10_learned_parameters.fa -s 4,10 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_59_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_59_b5_10_learned_parameters.fa -s 5,10 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_59_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_59_b6_10_learned_parameters.fa -s 6,10 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_59_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_59_b7_10_learned_parameters.fa -s 7,10 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_59_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_59_b8_10_learned_parameters.fa -s 8,10 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_59_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_59_b9_10_learned_parameters.fa -s 9,10 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_20_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_20_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_45_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_45_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_60_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_60_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_24_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_24_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_2_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_2_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_57_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_57_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_112_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_112_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_3_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_3_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_23_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_23_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_120_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_120_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_107_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_107_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_78_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_78_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_102_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_102_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_55_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_55_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_17_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_17_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_1_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_1_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_9_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_9_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_108_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_108_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_19_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_19_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_101_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_101_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_83_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_83_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_129_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_129_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_98_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_98_learned_parameters.fa

calling:  bsub -r -R rusage[mem=4] -R select[tmp>1000 && scratch>1] -q cga -P test -sp 65 -cwd /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000008 -E rm -rf /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000008/*; cd "/xchip/tcga" && cd "/xchip/cga" -Q EXCLUDE(167) -e scatter.err -o scatter.out -J scatter_223485   python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Scatter.py   /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_135_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_135_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_28_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_28_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_22_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_22_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_68_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_68_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_56_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_56_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_4_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_4_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_91_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_91_b0_3_learned_parameters.fa -s 0,3 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_91_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_91_b1_3_learned_parameters.fa -s 1,3 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_91_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_91_b2_3_learned_parameters.fa -s 2,3 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_35_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_35_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_6_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_6_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_92_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_92_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_88_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_88_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_16_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_16_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_96_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_96_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_97_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_97_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_131_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_131_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_77_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_77_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_95_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_95_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_125_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_125_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_5_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_5_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_10_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_10_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_109_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_109_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_30_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_30_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_117_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_117_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_103_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_103_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_87_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_87_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_70_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_70_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_34_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_34_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_105_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_105_b0_2_learned_parameters.fa -s 0,2

calling:  bsub -r -R rusage[mem=4] -R select[tmp>1000 && scratch>1] -q cga -P test -sp 65 -cwd /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000009 -E rm -rf /xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/223485/iteration1/scatter.0000000009/*; cd "/xchip/tcga" && cd "/xchip/cga" -Q EXCLUDE(167) -e scatter.err -o scatter.out -J scatter_223485   python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Scatter.py   /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_105_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_105_b1_2_learned_parameters.fa -s 1,2 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_81_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_81_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_62_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_62_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_29_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_29_b0_8_learned_parameters.fa -s 0,8 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_29_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_29_b1_8_learned_parameters.fa -s 1,8 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_29_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_29_b2_8_learned_parameters.fa -s 2,8 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_29_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_29_b3_8_learned_parameters.fa -s 3,8 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_29_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_29_b4_8_learned_parameters.fa -s 4,8 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_29_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_29_b5_8_learned_parameters.fa -s 5,8 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_29_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_29_b6_8_learned_parameters.fa -s 6,8 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_29_pathway.tab -c ../configEM.txt -b../clusterFiles/ -e ../outputFilesEM/pid_29_b7_8_learned_parameters.fa -s 7,8 : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_90_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_90_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_133_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_133_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_126_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_126_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_69_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_69_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_27_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_27_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_128_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_128_learned_parameters.fa : /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/taskLib/ParadigmPrepare.12.3260/paradigm -p ../clusterFiles/pid_21_pathway.tab -c ../configEM.txt -b ../clusterFiles/ -e ../outputFilesEM/pid_21_learned_parameters.fa

Finished submitting scatter jobs at Thu Nov  8 13:42:48 2012 in 0.235646367073 minutes
calling:  bsub -E cd "/xchip/tcga" && cd "/xchip/cga" -q cga -R select[tmp>1000 && scratch>1] -e scatter-gather.err.txt -o scatter-gather.out.txt -w ended(scatter_223485) -J gather_223485 -P test -R rusage[mem=16] -sp 65   python /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/Gather.py   0 0.001000

calling:  bsub -E cd "/xchip/cga" -q cga -R select[tmp>1000 && scratch>1] -e iterator.err.txt -o iterator.out.txt -w ended(gather_223485) -J iteration_223485 -P test -sp 65   /xchip/tcga/gdac_prod/source/analysis_pipeline/scripts/scatter-gather-iterator.py /xchip/tcga/gdac_prod/source/analysis_pipeline/scripts/iterative-scatter-gather.py --job-suffix 223485 --priority 65 cga /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/scatter-gather.xml /xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Paradigm.21.3374/
Path iteration1 exists:  True
