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#SITE LFN PFN TYPE SYSINFO PROFILES
hpc uscec::chr21:1.0 /home/uec-00/shared/production/production/software/perl_utils_usc/maqindex INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::fast2bfq:1.0 /primary/vari/software/perl_utils_usc/wrap_maq_fastq2bfq.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::fastqSplit:1.0 /primary/vari/software/perl_utils_usc/fastqSplit.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::fastqConstantSplit:1.0 /primary/vari/software/perl_utils_usc/fastqConstantSplit.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::filterContams:1.0 /primary/vari/software/perl_utils_usc/solexaFilterContams.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::map:1.0 /primary/vari/software/perl_utils_usc/wrap_maq_map.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::mapview:1.0 /primary/vari/software/perl_utils_usc/wrap_maq_mapview.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::mapMerge:1.0 /primary/vari/software/perl_utils_usc/wrap_maq_mapmerge.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::pileup:1.0 /primary/vari/software/perl_utils_usc/wrap_maq_pileup.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::sol2sanger:1.0 /primary/vari/software/perl_utils_usc/wrap_maq_sol2sanger.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::countpileup:1.0 /primary/vari/software/perl_utils_usc/wrap_java_report.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::readdepth:1.0 /primary/vari/software/perl_utils_usc/wrap_java_report.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::readcount:1.0 /primary/vari/software/perl_utils_usc/wrap_java_report.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::countfastq:1.0 /primary/vari/software/perl_utils_usc/wrap_java_report.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::pileupwig:1.0 /primary/vari/software/perl_utils_usc/wrap_pileupwig.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::featurepileup:1.0 /primary/vari/software/perl_utils_usc/wrap_java_report.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::countnmer:1.0 /primary/vari/software/perl_utils_usc/countnmer.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::qcmetrics:1.0 /primary/vari/software/perl_utils_usc/wrap_java_report.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::gzip:1.0 /bin/gzip INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::maq2bam:1.0 /primary/vari/software/perl_utils_usc/maq2bam.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::tophat:1.0 /primary/vari/software/perl_utils_usc/wrap_tophat.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="32000";PEGASUS::NUMCPUS="14"
hpc uscec::cufflinks:1.0 /primary/vari/software/perl_utils_usc/wrap_cufflinks.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::cuffdiff:1.0 /primary/vari/software/perl_utils_usc/wrap_cuffdiff.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::cuffcompare:1.0 /primary/vari/software/perl_utils_usc/wrap_cuffcompare.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::findpeaks:1.0 /primary/vari/software/perl_utils_usc/wrap_findpeaks.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::wigtotdf:1.0 /primary/vari/software/perl_utils_usc/wigtotdf.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::sam2bam:1.0 /primary/vari/software/perl_utils_usc/sam2bam.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::countadaptertrim:1.0 /primary/vari/software/perl_utils_usc/countAdapterTrimCounts.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::mergebamfastq:1.0 /primary/vari/software/perl_utils_usc/merge_bam_fastq.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::bwape:1.0 /primary/vari/software/perl_utils_usc/wrap_bwa_pe.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::bwa:1.0 /primary/vari/software/perl_utils_usc/wrap_bwa_se.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::bsmap:1.0 /primary/vari/software/perl_utils_usc/wrap_bsmap.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="32000mb";PEGASUS::NUMCPUS="28"
hpc uscec::mergebams:1.0 /primary/vari/software/perl_utils_usc/merge_bams.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::gatkmetrics:1.0 /primary/vari/software/uecgatk/default/uecgatk.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::gatk2metrics:1.0 /primary/vari/software/uecgatk2/default/uecgatk.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::picardtool:1.0 /primary/vari/software/perl_utils_usc/wrap_picard.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::applicationstack:1.0 /primary/vari/software/perl_utils_usc/trackversions.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::samplenreads:1.0 /primary/vari/software/perl_utils_usc/sampleNReads.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::bwabam:1.0 /primary/vari/software/perl_utils_usc/wrap_bwa.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="32000";PEGASUS::NUMCPUS="14"
hpc uscec::orgcontamcheck:1.0 /primary/vari/software/perl_utils_usc/orgcontamcheck.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::cleanup:1.0 /primary/vari/software/perl_utils_usc/cleanPipelineParts.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::samtools:1.0 /primary/vari/software/perl_utils_usc/wrap_samtools.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::bissnp:1.0 /primary/vari/software/perl_utils_usc/bissnp_pipeline.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="32000";PEGASUS::NUMCPUS="14"
hpc uscec::cpgcov:1.0 /primary/vari/software/perl_utils_usc/bamToElementEnrichment.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="14"
hpc uscec::novobis:1.0 /primary/vari/software/perl_utils_usc/wrap_novo_bis.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="32000";PEGASUS::NUMCPUS="14"
hpc uscec::wigtobigwig:1.0 /primary/vari/software/perl_utils_usc/wrap_wigToBigWig.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="1";PEGASUS::MAXMEM="32000";PEGASUS::NUMCPUS="14"
hpc uscec::tophat2:1.0 /primary/vari/software/perl_utils_usc/wrap_tophat2.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="32000";PEGASUS::NUMCPUS="14"
hpc uscec::cufflinks2:1.0 /primary/vari/software/perl_utils_usc/wrap_cufflinks2.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="32000";PEGASUS::NUMCPUS="14"
hpc uscec::lcextrap:1.0 /primary/vari/software/perl_utils_usc/wrap_lc_extrap.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::invertdup:1.0 /primary/vari/software/perl_utils_usc/invert_dups_check.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::methlevels:1.0 /primary/vari/software/perl_utils_usc/bissnp_trinuc_sample.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::macs:1.0 /primary/vari/software/perl_utils_usc/wrap_macs.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::gatkgenotyper:1.0 /primary/vari/software/perl_utils_usc/wrap_gatk_genotyper.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::rnaseqmetrics:1.0 /primary/vari/software/perl_utils_usc/wrap_rnaseq_metrics.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::mutect:1.0 /primary/vari/software/perl_utils_usc/wrap_mutect.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="7"
hpc uscec::bwameth:1.0 /primary/vari/software/perl_utils_usc/wrap_bwameth.pl INSTALLED INTEL64::LINUX ENV::EMAILID="ramjan@usc.edu";PEGASUS::collapse="5";PEGASUS::MAXMEM="16000mb";PEGASUS::NUMCPUS="28"