From ab711d259279c077a6b6f7b5fdfd2a23ac5acc2a Mon Sep 17 00:00:00 2001 From: Patrick Meidl <pm2@sanger.ac.uk> Date: Fri, 4 Apr 2008 10:56:09 +0000 Subject: [PATCH] changed LINUX86 to X86_64 lsf host type --- misc-scripts/id_mapping/default.conf | 18 ++++++++++-------- 1 file changed, 10 insertions(+), 8 deletions(-) diff --git a/misc-scripts/id_mapping/default.conf b/misc-scripts/id_mapping/default.conf index 875ed5758b..d8237a4708 100644 --- a/misc-scripts/id_mapping/default.conf +++ b/misc-scripts/id_mapping/default.conf @@ -1,11 +1,11 @@ ; for dry runs, no data is written to the database -dry_run = 1 +dry_run = 0 ; log level, useful values are 'INFO' or 'DEBUG' loglevel = DEBUG ; paths -dumppath = /lustre/work1/ensembl/pm2/idmapping/perl/20070903 +dumppath = /lustre/scratch1/ensembl/pm2/idmapping/perl/2008-04-01 ; prepend this path to your 'log' parameter ; will default to "$dumppath/log" if not set @@ -29,8 +29,8 @@ targetdbname = pm2_pan_troglodytes_core_41_21 ;chromosomes = 22 ; LSF parameters -;lsf_opt_run = "-M5000000 -R'select[type==LINUX64 && mem>5000],rusage[mem=5000]'" -;lsf_opt_dump_cache = "-M1700000 -R'select[type==LINUX64 && mem>1700],rusage[mem=1700]'" +lsf_opt_run = "-M3500000 -R'select[type==X86_64 && mem>3500],rusage[mem=3500]'" +;lsf_opt_dump_cache = "-M1700000 -R'select[type==X86_64 && mem>1700],rusage[mem=1700]'" ; ScoreBuilder min_exon_length = 15 @@ -38,13 +38,15 @@ exonerate_path = /usr/local/ensembl/bin/exonerate-0.8.2 exonerate_threshold = 0.5 exonerate_jobs = 0 exonerate_bytes_per_job = 250000 -exonerate_extra_params = '--bestn 40' +exonerate_extra_params = '--bestn 100' transcript_score_threshold = 0 +synteny_rescore_jobs = 20 +;lsf_opt_synteny_rescore = ; upload results into db -upload_events = 0 -upload_stable_ids = 0 -upload_archive = 0 +upload_events = 1 +upload_stable_ids = 1 +upload_archive = 1 ; URL prefix for navigation urlprefix = http://jun2007.archive.ensembl.org/Pan_troglodytes/geneview?gene= -- GitLab