[Bio] / FortyEightMeta Repository:
ViewVC logotype

Index of /FortyEightMeta

Files shown:54 (Show 4 dead files)
Sticky Tag:


File Rev. Age Author Last log entry
 Parent Directory        
ExpandSims.pm  1.1  10 years  olson  initial checking of metagenome 48 stuff
MGDB.pm  1.2  9 years  olson  use INTEGER instead of SMALLINT for contig offsets.
Makefile  1.17  7 years  dsouza  Added mg_create_histogram_images.pl
README  1.2  9 years  olson  Development checkin of new metagenomics RAST pipeline.
SimDB.pm  1.3  8 years  redwards  methods for getting upgrades between databases
SimStatusDB.pm  1.3  9 years  olson  Add connect/disconnect to SimStatusDB. Disconnect while sims run.
TaxStr.pm  1.2  9 years  olson  Development checkin of new metagenomics RAST pipeline.
check_jobs_mg.pl  1.18  9 years  olson  add mgrast2 check
copy_metagenome.pl  1.1  9 years  redwards  code to copy a v1 metagenome to a new job
find_broken_jobs.pl  1.1  9 years  olson  Development checkin of new metagenomics RAST pipeline.
find_jobs_with_short_seqs.pl  1.1  9 years  olson  Development checkin of new metagenomics RAST pipeline.
finish_job.pl  1.2  8 years  redwards  changing the user object accessors
format_all_public_metagenomes.pl  1.1  8 years  redwards  code to format all public metagenome contigs files
get_sim_status.pl  1.3  8 years  redwards  changing the user object accessors
load_sim_data.pl  1.4  9 years  olson  Loader tweaks.
load_sim_data_noncached.pl  1.1  9 years  olson  Rename sim data loader scripts.
load_tax.pl  1.3  9 years  olson  Updates to mgrast sim loader.
merge_repaired_job_results.pl  1.1  9 years  olson  Development checkin of new metagenomics RAST pipeline.
mg_check_sims.pl  1.5  7 years  dsouza  Set status for a load at the same time the sge job is created
mg_chunk_sims.pl  1.2  9 years  olson  Development checkin of new metagenomics RAST pipeline.
mg_compute_sims.pl  1.5  9 years  olson  Add connect/disconnect to SimStatusDB. Disconnect while sims run.
mg_compute_sims_on_timelogic.pl  1.9  10 years  mkubal  -priority 5, records SOC job to meta.xml
mg_create_db_indexes.pl  1.1  9 years  olson  Commit of initial MGRAST2 code.
mg_create_histogram_images.pl  1.2  7 years  dsouza  removed comments
mg_create_seed_org.pl  1.4  7 years  dsouza  stripped down to bare essentials -- create a directory, rewrite the sequence fil...
mg_export.pl  1.3  7 years  dsouza  Rewritten to export to genbank using database tables, creates rp directory and e...
mg_figfam.pl  1.2  10 years  olson  Some minor mg assignment fixes
mg_gen_subsystem_tax.pl  1.1  9 years  olson  Development checkin of new metagenomics RAST pipeline.
mg_load_done.pl  1.3  9 years  olson  Replace the MLDBM/DB_File sim status database with a postgres version.
mg_load_sims.pl  1.3  9 years  olson  Replace the MLDBM/DB_File sim status database with a postgres version.
mg_load_sims_file.pl  1.3  8 years  jared  Disabled full sims table load
mg_load_tax_db.pl  1.2  9 years  olson  Commit of initial MGRAST2 code.
mg_norm_16s.pl  1.1  9 years  olson  Commit of initial MGRAST2 code.
mg_norm_euro.pl  1.1  9 years  olson  Commit of initial MGRAST2 code.
mg_norm_greengenes.pl  1.1  9 years  olson  Commit of initial MGRAST2 code.
mg_norm_silva.pl  1.1  9 years  olson  Development checkin of new metagenomics RAST pipeline.
mg_port_job.pl  1.2  9 years  olson  die if job already loaded
mg_postproc_taxa_sims.pl  1.13  9 years  olson  Development checkin of new metagenomics RAST pipeline.
mg_preprocess.pl  1.18  9 years  arodri7  update the metagene process tool
mg_sims.pl  1.12  9 years  dsouza  Changed job priority to low (in sge queue)
mg_sims_done.pl  1.1  10 years  olson  initial checking of metagenome 48 stuff
mg_sims_to_gff_and_gbk.pl  1.3  8 years  dsouza  Changed from using system call to pipe to gzip in filehandle to zip file
mg_to_gbk.pl  1.4  8 years  dsouza  set meta status to error if gff required and not found, cleaned out junk
mg_upgrade_preprocess.pl  1.1  8 years  redwards  two parts of the code for upgrading from an old version of mg-rast to a newer ve...
mg_upgrade_sims.pl  1.1  8 years  redwards  two parts of the code for upgrading from an old version of mg-rast to a newer ve...
pull_sge_accounting_for_jobs.pl  1.1  9 years  olson  Development checkin of new metagenomics RAST pipeline.
recover_broken_job.pl  1.6  9 years  redwards  updating with new databases
reload_job_sims.pl  1.1  9 years  olson  script to reload all sims for a mgrast job.
remake_sims_tables.pl  1.1  9 years  olson  Rebuild a job's database tables .
renumber_split_move_blastx.pl  1.1  9 years  redwards  Process and consume externally ran blastx jobs into the mg-rast pipeline
reset_sims_load.pl  1.1  8 years  redwards  code to reset lost mg sims loading
resume_after_fixed_fasta.pl  1.2  9 years  redwards  just adding a test that the file was found
summarize_mgrast_taxa.pl  1.1  10 years  olson  Summarize all taxa info for all jobs in the mgrast.
tax-schema.sql  1.4  9 years  olson  Commit of initial MGRAST2 code.

MCS Webmaster
ViewVC Help
Powered by ViewVC 1.0.3