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Index of /FortyEight

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File Rev. (rev) Age Author Last log entry
 Parent Directory        
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rp_compute_sims.pl  1.2  13 years  olson  updates to 48 code
copy-raw-genome.pl  1.2  12 years  olson  use FIG_Config for jobs direcotry(backend)
find-genomes-not-in-seed.pl  1.3  12 years  olson  move email support to Job48 remove stopligth status make quality_check set up co...
RawOrganismGenomeBrowser.pm  1.2  12 years  paarmann  *** empty log message ***
check_ncbi.cgi  1.4  12 years  paarmann  *** empty log message ***
FortyEight.tmpl  1.3  12 years  paarmann  added js for tooltip
migrate_job.pl  1.2  12 years  olson  add -new option that assigns a new job number to the migrated job.
rast-title.xcf  1.1  12 years  paarmann  *** empty log message ***
FortyEight.pm  1.4  12 years  paarmann  fixed text
imp_prepare_sims.pl  1.1  12 years  olson  Rollup of RAST->SEED import stuff.
rp_chunk_sims.pl  1.3  12 years  olson  Rollup of RAST->SEED import stuff.
imp_sims.pl  1.1  12 years  olson  Rollup of RAST->SEED import stuff.
imp_process_sims.pl  1.1  12 years  olson  Rollup of RAST->SEED import stuff.
imp_merge_sims.pl  1.1  12 years  olson  Rollup of RAST->SEED import stuff.
import_pipeline.pl  1.1  12 years  olson  Rollup of RAST->SEED import stuff.
ImportJob.pm  1.1  12 years  olson  new file
SGE.pm  1.1  12 years  olson  new files
TeragridCompute.pm  1.1  12 years  olson  new files
rp_HMM_PFAM_search_on_timelogic.pl  1.1  12 years  mkubal  v1
imp_check_tl_sim_status.pl  1.2  12 years  olson  Import changes.
validate_tl_sims.pl  1.2  12 years  olson  Import changes.
ClusterStage.pm  1.3  12 years  mkubal  removed high priority form args
imp_build_nr.pl  1.3  12 years  olson  Updates to the Teach stuff. Small mod to build_nr to support condtional setting ...
rp_gen_teach_sims.pl  1.1  12 years  olson  Updates to the Teach stuff. Small mod to build_nr to support condtional setting ...
rp_quality_check.pl  1.12  12 years  olson  Disable contig splitting, quality check, and correction when keep_genecalls is e...
rp_compute_pchs.pl  1.4  12 years  olson  Disable contig splitting, quality check, and correction when keep_genecalls is e...
rp_compute_bbhs.pl  1.2  12 years  olson  Disable contig splitting, quality check, and correction when keep_genecalls is e...
rp_make_PFAM_HMM_derived_attributes.pl  1.3  12 years  mkubal  writes to rp/genome/attributes dir
rp_glimmer.pl  1.4  12 years  olson  add the FIG bin and external bin dirs to the path so that run_glimmer2 can find ...
rp_critica.pl  1.4  12 years  olson  set up envirnment for critica perl
rp_glue_contigs.pl  1.5  12 years  olson  Don't submit non-TL jobs to the TL queue. Index attributes after new attributes...
rp_CELLO_attribute_generation.pl  1.2  12 years  olson  Don't submit non-TL jobs to the TL queue. Index attributes after new attributes...
rp_PFAM_attribute_generation.pl  1.2  12 years  olson  Don't submit non-TL jobs to the TL queue. Index attributes after new attributes...
rp_PHOBIUS_attribute_generation.pl  1.2  12 years  olson  Don't submit non-TL jobs to the TL queue. Index attributes after new attributes...
rp_CELLO_search.pl  1.3  12 years  mkubal  writes/reads to /rp/genome
rp_make_CELLO_attributes.pl  1.3  12 years  mkubal  writes/reads to /rp/genome
rp_make_PHOBIUS_attributes.pl  1.3  12 years  mkubal  writes/reads to /rp/genome
rp_index_attributes.pl  1.4  12 years  olson  allow a second argument to be passed & ignored
reset_stage.pl  1.1  12 years  olson  Add reset_stage.
rp_scenarios.pl  1.7  12 years  mkubal  production RAST version
CheckGenome.pm  1.8  12 years  wilke  find is following symlinks now
create_import_job.pl  1.5  12 years  olson  Rollup of import changes.
imp_submit_tl_sims.pl  1.2  12 years  olson  Rollup of import changes.
get_nmpdr_group.pl  1.1  12 years  olson  Determine NMPDR group name for given genome name.
imp_salvage.pl  1.4  12 years  olson  fix bad salvage bug
check_jobs_ross.pl  1.1  11 years  overbeek  this is a hacked check_jobs for the ross RAST
get_number_of_external_jobs.pl  1.6  11 years  wilke  *** empty log message ***
Table.pm  1.6  11 years  parrello  Added TITLE command for Wiki.
rp_lustre_finish.pl  1.1  11 years  olson  Support lustre work directory.
imp_finish_tl_sims.pl  1.6  11 years  olson  lingering fixes for timelogic stuff for the import pipeline.
SeedExport.pm  1.11  11 years  olson  Fix exports.
rp_write_exports.pl  1.3  11 years  olson  Create contig btrees if not already there; this HUGEly accelerates download crea...
rast_v1.cgi  1.1  11 years  olson  Add new stuff to mantis support. Rename the v1 rast frontpage to rast_v1.cgi.
Mantis.pm  1.4  11 years  olson  Add links into the page dumper in the notes.
JobError.pm  1.4  11 years  olson  Rework error reporting.
rp_PHOBIUS_search.pl  1.4  11 years  mkubal  new url
rp_mw_and_pi_attribute_generation.pl  1.1  11 years  mkubal  new
rp_interpro_download_attribute_generation.pl  1.1  11 years  mkubal  new
crc64.py  1.1  11 years  mkubal  new
rp_make_interpro_download_attributes.pl  1.1  11 years  mkubal  new
rp_interpro_computed_attribute_generation.pl  1.1  11 years  mkubal  new
rp_submit_genome_to_iprscan_on_biocluster.pl  1.1  11 years  mkubal  new
rp_make_interpro_computed_attributes.pl  1.1  11 years  mkubal  new
check_rast_genome.pl  1.2  11 years  wilke  *** empty log message ***
reset-failed-rp.pl  1.1  11 years  olson  Add reset-failed-rp which will fix a job which RP broke for.
rp_compute_crc64_for_pegs_in_genome.pl  1.2  11 years  mkubal  for new RAST genomes
rp_similar_to_human_attribute_generation.pl  1.1  11 years  mkubal  for new RAST genomes
rp_PSORT_attribute_generation.pl  1.1  11 years  mkubal  for new RAST genomes
rp_run_PSORT_on_genome.pl  1.1  11 years  mkubal  for new RAST genomes
rp_genome_phenotype_attribute_generation.pl  1.1  11 years  mkubal  for new RAST genomes
rp_make_similar_to_human_attributes.pl  1.2  11 years  mkubal  v2
rp_run_blast_against_human.pl  1.2  11 years  mkubal  v2
rp_make_genome_phenotype_attributes.pl  1.2  11 years  mkubal  v2
Makefile  1.28  11 years  mkubal  v2
rp_postproc_sims.pl  1.7  11 years  olson  Use FIG::find_fig_executable() to determine the proper path for index_sims_File....
rp_make_mw_and_pi_attributes.pl  1.5  11 years  mkubal  SeqStat lib fix
rp_correction.pl  1.6  11 years  olson  add -meta=metafile to the invoked processing scripts.
JobStage.pm  1.3  11 years  olson  More stage methods.
rp_rapid_propagation.pl  1.9  11 years  olson  fix typo
check_jobs.pl  1.55  11 years  olson  Fix bug in check_jobs Job48 checks $FIG_Config::meta_use_db before createing Gen...
Job48.pm  1.32  11 years  olson  Fix bug in check_jobs Job48 checks $FIG_Config::meta_use_db before createing Gen...
rp_make_PSORT_attributes.pl  1.3  11 years  mkubal  handles possible multilocation pegs
rp_auto_assign.pl  1.6  11 years  olson  Use -orgdir option to auto_assign in order to use indexed sims.

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