#
# Mirror configuration file.
#
# Each entry should start with a name.  The three necessary fields are
# source, target, and command.  The mirror script checks if source is
# newer than target, in which case command is executed.
#
# Section:
#   Swiss-Prot
#   GenPep & PIR
#   RefSeq
#   Generic download boogies_db/store_db
#   Bacterial genomes
#   UniGene
#   EMBL
#   Yeast
#   Worm
#   CRC Non-redundant (nr)
#   ESTs 
#   Predicted coding sequences and peptides
#   Repbase
#   Plasmodium
#   Genomes
#   Odds and ends
#
################################################################################
#  Swiss-Prot
################################################################################

name	SwissProt and trembl Release
host	sib-db1
source	/database/stamps/sptrnr
target	/db/swiss-prot/swiss.dat
command	/home/dbmirror/src/storeDb -s swiss.dat.gz -s swiss.idx.Z -s swiss_2.idx.Z -s swiss.seq.Z -s swiss_varsplic.seq.Z -s trembl.dat.gz -s trembl.idx.Z -s trembl_2.idx.Z -s trembl.seq.Z -s README.mirror -s swiss_varsplic.dat.Z -s delac_sp.txt -s speclist.txt -s acindex.txt -s mgdtosp.txt -t /db/swiss-prot 2>&1 | tee /database/pool/strel.log

name	NCBI BLAST swiss PEP 2
host	frt
source	/db/swiss-prot/swiss.seq
target	/scratch/frt/blastnet/database/swiss.psq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n swiss -s /db/swiss-prot/swiss.seq -b /scratch/frt/blastnet/database

name	NCBI BLAST swiss PEP 2
host	sib-gm1
source	/db/swiss-prot/swiss.seq
target	/paracel/paracel/pbroot/swiss.psq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n swiss -s /db/swiss-prot/swiss.seq -b /paracel/paracel/pbroot

#name	GM - swiss PEP
#host	ludwig-gm1
#source	/db/swiss-prot/swiss.seq
#target	/usr/local/gm/dbstamps/swiss.pep
#command	/home/dbmirror/src/chewForGM -t p -n swiss -s /db/swiss-prot/swiss.seq -p /usr/local/gm/dbstamps/swiss.pep

name	SwissProt complete proteomes
host	sib-db1
source	/database/stamps/spproteomes
target	/db/proteome/spproteomes.dir
command	/home/dbmirror/src/store_proteomes /database/pool/spproteomes /db/proteome /home/dbmirror/etc/farms.prot

name	NCBI BLAST SwissProt complete proteomes
host	frt
source	/db/proteome/spproteomes.dir
target	/scratch/frt/blastnet/database/spproteomes.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/proteome -e seq -b /scratch/frt/blastnet/database -p spproteomes.stamp

name	NCBI BLAST pdb PEP 2
host	frt
source	/db/pdb/pdb_seqres.txt
target	/scratch/frt/blastnet/database/pdb.psq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n pdb -s /db/pdb/pdb_seqres.txt -b /scratch/frt/blastnet/database

name	NCBI BLAST SwissProt complete proteomes
host	sib-gm1
source	/db/proteome/spproteomes.dir
target	/paracel/paracel/pbroot/spproteomes.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t p -s /db/proteome -e seq -b /paracel/paracel/pbroot -p spproteomes.stamp

name	NCBI BLAST pdb PEP 2
host	sib-gm1
source	/db/pdb/pdb_seqres.txt
target	/paracel/paracel/pbroot/pdb.psq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n pdb -s /db/pdb/pdb_seqres.txt -b /paracel/paracel/pbroot

#name	GM - pdb PEP
#host	ludwig-gm1
#source	/db/swiss-prot/pdb.seq
#target	/usr/local/gm/dbstamps/pdb.pep
#command	/home/dbmirror/src/chewForGM -t p -n pdb -s /db/swiss-prot/pdb.seq -p /usr/local/gm/dbstamps/pdb.pep

name    SuperBugs  authentic swissprot
host    isrec-insect9
source  /db/swiss-prot/swiss.seq
target  /export/data/prot/swiss.seq
command /home/dbmirror/src/beetleload -f /db/swiss-prot/swiss.seq /export/data/prot/swiss.seq 2>&1

# Commented out 06.09.2004, Volker
#name	Prosite's profile with pre-release
#host	ludwig-sun1
#source	/db/ftp/pub/sib-isrec/profiles/prosite_prerelease.prf
#target	/db/profile/prosite.prf
#command	/home/prosite/util/distribute_profile.pl prosite /db/ftp/pub/sib-isrec/profiles/prosite_prerelease.prf
#
#name	Frame-tolerant prosite's profile with pre-release
#host	ludwig-sun1
#source	/db/ftp/pub/sib-isrec/profiles/fsprosite_prerelease.fsp
#target	/db/profile/fsprosite.prf
#command	/home/prosite/util/distribute_profile.pl fsprosite /db/ftp/pub/sib-isrec/profiles/fsprosite_prerelease.fsp
#
#name	QDOC - documentation of pre-released profiles
#host	ludwig-sun1
#source	/db/ftp/pub/sib-isrec/profiles/prosite_qdoc.txt
#target	/db/profile/qdoc.txt
#command	/home/prosite/util/distribute_profile.pl qdoc /db/ftp/pub/sib-isrec/profiles/prosite_qdoc.txt 

################################################################################
#   RefSeq
################################################################################

name	RefSeq updates
host	sib-db1
source	/database/stamps/rsu
target	/db/refseq/new/stamp
command	/home/dbmirror/src/switchRSUpd

name	NCBI BLAST RefSeq release - RNA
host	frt
source	/db/refseq/release/stamp
target	/scratch/frt/blastnet/database/rs-re_dna.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/refseq -e -re.fna -b /scratch/frt/blastnet/database -p rs-re_dna.stamp

name	NCBI BLAST RefSeq update - RNA
host	frt
source	/db/refseq/new/stamp
target	/scratch/frt/blastnet/database/rs-up_dna.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/refseq -e -up.fna -b /scratch/frt/blastnet/database -p rs-up_dna.stamp

name	NCBI BLAST RefSeq release - PEP
host	frt
source	/db/refseq/release/stamp
target	/scratch/frt/blastnet/database/rs-re_pep.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/refseq -e -re.faa -b /scratch/frt/blastnet/database -p rs-re_pep.stamp

name	NCBI BLAST RefSeq update - PEP
host	frt
source	/db/refseq/new/stamp
target	/scratch/frt/blastnet/database/rs-up_pep.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/refseq -e -up.faa -b /scratch/frt/blastnet/database -p rs-up_pep.stamp

name	NCBI BLAST RefSeq release - RNA (Paracel)
host	sib-gm1
source	/db/refseq/release/stamp
target	/paracel/paracel/pbroot/rs-re_dna.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/refseq -e -re.fna -b /paracel/paracel/pbroot -p rs-re_dna.stamp

name	NCBI BLAST RefSeq update - RNA (Paracel)
host	sib-gm1
source	/db/refseq/new/stamp
target	/paracel/paracel/pbroot/rs-up_dna.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/refseq -e -up.fna -b /paracel/paracel/pbroot -p rs-up_dna.stamp

name	NCBI BLAST RefSeq release - PEP (Paracel)
host	sib-gm1
source	/db/refseq/release/stamp
target	/paracel/paracel/pbroot/rs-re_pep.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t p -s /db/refseq -e -re.faa -b /paracel/paracel/pbroot -p rs-re_pep.stamp

name	NCBI BLAST RefSeq update - PEP (Paracel)
host	sib-gm1
source	/db/refseq/new/stamp
target	/paracel/paracel/pbroot/rs-up_pep.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t p -s /db/refseq -e -up.faa -b /paracel/paracel/pbroot -p rs-up_pep.stamp

#name	GM RefSeq  - DNA
#host	ludwig-gm1
#source	/db/refseq/hs-up.fna
#target	/usr/local/gm/dbstamps/refseq_dna.stamp
#command	/home/dbmirror/src/chewAllForGM -t n -s /db/refseq -e fna -x "rs-" -p /usr/local/gm/dbstamps/refseq_dna.stamp

#name	GM RefSeq  - PEP
#host	ludwig-gm1
#source	/db/refseq/hs-up.faa
#target	/usr/local/gm/dbstamps/refseq_pep.stamp
#command	/home/dbmirror/src/chewAllForGM -t p -s /db/refseq -e faa -x "rs-" -p /usr/local/gm/dbstamps/refseq_pep.stamp

################################################################################
#   Generic download boogies_db/store_db
################################################################################

name	Generic download boogies_db/store_db
host	sib-db1
source	/database/stamps/dbupdate
target	/home/dbmirror/etc/dbupdate.stamp
command	/home/dbmirror/src/store_db /home/dbmirror/etc/*.dbconf

################################################################################
#   Bacterial genomes
################################################################################

name	NCBI Bacteria Genomes
host	sib-db1
source	/database/stamps/bacteria
target	/db/genome/bacteria/bacteria.dir
command	/home/dbmirror/src/store_bacteria /database/pool/bacteria /db/genome/bacteria bacteria /home/dbmirror/etc/farms.nuc /home/dbmirror/etc/farms.prot

name	NCBI BLAST bacteria - DNA
host	frt
source	/db/genome/bacteria/bacteria.dir
target	/scratch/frt/blastnet/database/bacteria_dna.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/genome/bacteria -e fna -b /scratch/frt/blastnet/database -p bacteria_dna.stamp

name	NCBI BLAST bacteria - proteins
host	frt
source	/db/genome/bacteria/bacteria.dir
target	/scratch/frt/blastnet/database/bacteria_pep.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/genome/bacteria -e faa -b /scratch/frt/blastnet/database -p bacteria_pep.stamp

name	NCBI BLAST bacteria - DNA
host	sib-gm1
source	/db/genome/bacteria/bacteria.dir
target	/paracel/paracel/pbroot/bacteria_dna.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/genome/bacteria -e fna -b /paracel/paracel/pbroot -p bacteria_dna.stamp

name	NCBI BLAST bacteria - proteins
host	sib-gm1
source	/db/genome/bacteria/bacteria.dir
target	/paracel/paracel/pbroot/bacteria_pep.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t p -s /db/genome/bacteria -e faa -b /paracel/paracel/pbroot -p bacteria_pep.stamp

name    NCBI Bacteria SSA
host    ludwig-sun1
source  /home/dbmirror/etc/farms.prot
target  /export/mirror/sib-isrec-www/ssa/data/fps/bac/fps.stamp
command /home/dbmirror/src/update_bacteria_ssa /db/genome/bacteria /export/mirror/sib-isrec-www/ssa

################################################################################
#   Viral genomes
################################################################################

name    NCBI Viral Genomes
host    sib-db1
source  /database/stamps/viruses
target  /db/genome/viruses/viruses.dir
command /home/dbmirror/src/store_viruses /database/pool/viruses /db/genome/viruses

name    NCBI BLAST Viruses - DNA
host    frt
source  /db/genome/viruses/viral1.genomic.fna
target  /scratch/frt/blastnet/database/viruses_dna.stamp
command /home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/genome/viruses -e fna -b /scratch/frt/blastnet/database -p viruses_dna.stamp

name    NCBI BLAST Viruses - proteins
host    frt
source  /db/genome/viruses/viral1.protein.faa
target  /scratch/frt/blastnet/database/viruses_pep.stamp
command /home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/genome/viruses -e faa -b /scratch/frt/blastnet/database -p viruses_pep.stamp

name    NCBI BLAST Viruses - DNA
host    sib-gm1
source  /db/genome/viruses/viral1.genomic.fna
target  /paracel/paracel/pbroot/viruses_dna.stamp
command /paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/genome/viruses -e fna -b /paracel/paracel/pbroot -p viruses_dna.stamp

name    NCBI BLAST Viruses - proteins
host    sib-gm1
source  /db/genome/viruses/viral1.protein.faa
target  /paracel/paracel/pbroot/viruses_pep.stamp
command /paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t p -s /db/genome/viruses -e faa -b /paracel/paracel/pbroot -p viruses_pep.stamp

name    NCBI Viruses SSA
host    ludwig-sun1
source  /db/genome/virusesSV.ptr
target  /export/mirror/sib-isrec-www/ssa/data/fps/vir/fps.stamp
command /home/dbmirror/src/update_viruses_ssa /db/genome/viruses /export/mirror/sib-isrec-www/ssa

################################################################################
#   UniGene
################################################################################

# unigene update

name	UniGene Release
host	sib-db1
source	/database/stamps/unigene
target	/db/unigene/Zm_UG.idx
command	/home/dbmirror/src/storeDb -allowempty -s *.info -s *.lib.info.gz -s *.retired.lst.gz -s *.data.gz -s *.data.idx.gz -s *.data.ac.idx.gz -s *.data.loc.idx.gz -s *.data.clone.idx.gz -s *.seq.uniq.gz -s *.seq.uniq.idx.gz -s *_UG.seq.gz -s *_UG.idx.gz -s *_UG.cix.gz -s *.clone.gz -s README.mirror -s README -s *.LOG -t /db/unigene

# unigene contigs
name	UniGene Aedes aegypti contigs
host	sib-db1
source	/scratch/frt/ug/stamp.aae
target	/db/trest/Aae_contigs.seq
command	/home/dbmirror/src/mirrorUGC Aae est_aae

name	UniGene Anopheles gambiae contigs
host	sib-db1
source	/scratch/frt/ug/stamp.aga
target	/db/trest/Aga_contigs.seq
command	/home/dbmirror/src/mirrorUGC Aga est_aga

name	UniGene Apis mellifera contigs
host	sib-db1
source	/scratch/frt/ug/stamp.bee
target	/db/trest/Ame_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ame est_bee

name	UniGene Aquilegia formosa x Aquilegia pubescens contigs
host	sib-db1
source	/scratch/frt/ug/stamp.afp
target	/db/trest/Afp_contigs.seq
command	/home/dbmirror/src/mirrorUGC Afp est_afp

name	UniGene Arabidopsis thaliana contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ara
target	/db/trest/At_contigs.seq
command	/home/dbmirror/src/mirrorUGC At est_ara

name	UniGene Branchiostoma floridae contigs
host	sib-db1
source	/scratch/frt/ug/stamp.bfl
target	/db/trest/Bfl_contigs.seq
command	/home/dbmirror/src/mirrorUGC Bfl est_bfl

name	UniGene Bombyx mori contigs
host	sib-db1
source	/scratch/frt/ug/stamp.bmo
target	/db/trest/Bmo_contigs.seq
command	/home/dbmirror/src/mirrorUGC Bmo est_bmo

name	UniGene Brassica napus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.bna
target	/db/trest/Bna_contigs.seq
command	/home/dbmirror/src/mirrorUGC Bna est_bna

name	UniGene Bos taurus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.cow
target	/db/trest/Bt_contigs.seq
command	/home/dbmirror/src/mirrorUGC Bt est_cow

name	UniGene Caenorhabditis elegans contigs
host	sib-db1
source	/scratch/frt/ug/stamp.wrm
target	/db/trest/Cel_contigs.seq
command	/home/dbmirror/src/mirrorUGC Cel est_wrm

name	UniGene Canis familiaris contigs
host	sib-db1
source	/scratch/frt/ug/stamp.cfa
target	/db/trest/Cfa_contigs.seq
command	/home/dbmirror/src/mirrorUGC Cfa est_cfa

name	UniGene Ciona intestinalis contigs
host	sib-db1
source	/scratch/frt/ug/stamp.cin
target	/db/trest/Cin_contigs.seq
command	/home/dbmirror/src/mirrorUGC Cin est_cin

name	UniGene Coccidioides posadasii contigs
host	sib-db1
source	/scratch/frt/ug/stamp.cpo
target	/db/trest/Cpo_contigs.seq
command	/home/dbmirror/src/mirrorUGC Cpo est_cpo

name	UniGene Chlamydomonas reinhardtii contigs
host	sib-db1
source	/scratch/frt/ug/stamp.cre
target	/db/trest/Cre_contigs.seq
command	/home/dbmirror/src/mirrorUGC Cre est_cre

name	UniGene Ciona savignyi contigs
host	sib-db1
source	/scratch/frt/ug/stamp.csa
target	/db/trest/Csa_contigs.seq
command	/home/dbmirror/src/mirrorUGC Csa est_csa

name	UniGene Citrus sinensis contigs
host	sib-db1
source	/scratch/frt/ug/stamp.csi
target	/db/trest/Csi_contigs.seq
command	/home/dbmirror/src/mirrorUGC Csi est_csi

name	UniGene Dictyostelium discoideum contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ddi
target	/db/trest/Ddi_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ddi est_ddi

name	UniGene Drosophila melanogaster contigs
host	sib-db1
source	/scratch/frt/ug/stamp.dro
target	/db/trest/Dm_contigs.seq
command	/home/dbmirror/src/mirrorUGC Dm est_dro

name	UniGene Danio rerio contigs
host	sib-db1
source	/scratch/frt/ug/stamp.dan
target	/db/trest/Dr_contigs.seq
command	/home/dbmirror/src/mirrorUGC Dr est_dan

name	UniGene Filobasidiella neoformans contigs
host	sib-db1
source	/scratch/frt/ug/stamp.fne
target	/db/trest/Fne_contigs.seq
command	/home/dbmirror/src/mirrorUGC Fne est_fne

name	UniGene Fundulus heteroclitus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.fhe
target	/db/trest/Fhe_contigs.seq
command	/home/dbmirror/src/mirrorUGC Fhe est_fhe

name	UniGene Gasterosteus aculeatus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.gac
target	/db/trest/Gac_contigs.seq
command	/home/dbmirror/src/mirrorUGC Gac est_gac

name	UniGene Gallus gallus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ckn
target	/db/trest/Gga_contigs.seq
command	/home/dbmirror/src/mirrorUGC Gga est_ckn

name	UniGene Glycine max contigs
host	sib-db1
source	/scratch/frt/ug/stamp.soy
target	/db/trest/Gma_contigs.seq
command	/home/dbmirror/src/mirrorUGC Gma est_soy

name	UniGene Gibberella moniliformis contigs
host	sib-db1
source	/scratch/frt/ug/stamp.gmo
target	/db/trest/Gmo_contigs.seq
command	/home/dbmirror/src/mirrorUGC Gmo est_gmo

name	UniGene Gossypium hirsutum contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ghi
target	/db/trest/Ghi_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ghi est_ghi

name	UniGene Gossypium raimondii contigs
host	sib-db1
source	/scratch/frt/ug/stamp.gra
target	/db/trest/Gra_contigs.seq
command	/home/dbmirror/src/mirrorUGC Gra est_gra

name	UniGene Helianthus annuus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.han
target	/db/trest/Han_contigs.seq
command	/home/dbmirror/src/mirrorUGC Han est_han

name	UniGene Hydra magnipapillata contigs
host	sib-db1
source	/scratch/frt/ug/stamp.hma
target	/db/trest/Hma_contigs.seq
command	/home/dbmirror/src/mirrorUGC Hma est_hma

name	UniGene Homo sapiens contigs
host	sib-db1
source	/scratch/frt/ug/stamp.hum
target	/db/trest/Hs_contigs.seq
command	/home/dbmirror/src/mirrorUGC Hs est_hum

name	UniGene Hordeum vulgare contigs
host	sib-db1
source	/scratch/frt/ug/stamp.bly
target	/db/trest/Hv_contigs.seq
command	/home/dbmirror/src/mirrorUGC Hv est_bly

name	UniGene Lotus corniculatus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.lco
target	/db/trest/Lco_contigs.seq
command	/home/dbmirror/src/mirrorUGC Lco est_lco

name	UniGene Lotus corniculatus var. japonicus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.lja
target	/db/trest/Lja_contigs.seq
command	/home/dbmirror/src/mirrorUGC Lja est_lja

name	UniGene Lycopersicon esculentum contigs
host	sib-db1
source	/scratch/frt/ug/stamp.tmt
target	/db/trest/Les_contigs.seq
command	/home/dbmirror/src/mirrorUGC Les est_tmt

name	UniGene Lactuca sativa contigs
host	sib-db1
source	/scratch/frt/ug/stamp.lsa
target	/db/trest/Lsa_contigs.seq
command	/home/dbmirror/src/mirrorUGC Lsa est_lsa

name	UniGene Macaca fascicularis contigs
host	sib-db1
source	/scratch/frt/ug/stamp.mfa
target	/db/trest/Mfa_contigs.seq
command	/home/dbmirror/src/mirrorUGC Mfa est_mfa

name	UniGene Malus x domestica contigs
host	sib-db1
source	/scratch/frt/ug/stamp.mdo
target	/db/trest/Mdo_contigs.seq
command	/home/dbmirror/src/mirrorUGC Mdo est_mdo

name	UniGene Magnaporthe grisea contigs
host	sib-db1
source	/scratch/frt/ug/stamp.mgr
target	/db/trest/Mgr_contigs.seq
command	/home/dbmirror/src/mirrorUGC Mgr est_mgr

name	UniGene Mus musculus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.mus
target	/db/trest/Mm_contigs.seq
command	/home/dbmirror/src/mirrorUGC Mm est_mus

name	UniGene Macaca mulatta contigs
host	sib-db1
source	/scratch/frt/ug/stamp.mmu
target	/db/trest/Mmu_contigs.seq
command	/home/dbmirror/src/mirrorUGC Mmu est_mmu

name	UniGene Molgula tectiformis contigs
host	sib-db1
source	/scratch/frt/ug/stamp.mte
target	/db/trest/Mte_contigs.seq
command	/home/dbmirror/src/mirrorUGC Mte est_mte

name	UniGene Medicago truncatula contigs
host	sib-db1
source	/scratch/frt/ug/stamp.mtr
target	/db/trest/Mtr_contigs.seq
command	/home/dbmirror/src/mirrorUGC Mtr est_mtr

name	UniGene Nicotiana tabacum contigs
host	sib-db1
source	/scratch/frt/ug/stamp.nta
target	/db/trest/Nta_contigs.seq
command	/home/dbmirror/src/mirrorUGC Nta est_nta

name	UniGene Neurospora crassa contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ncr
target	/db/trest/Ncr_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ncr est_ncr

name	UniGene Ovis aries contigs
host	sib-db1
source	/scratch/frt/ug/stamp.oar
target	/db/trest/Oar_contigs.seq
command	/home/dbmirror/src/mirrorUGC Oar est_oar

name	UniGene Oryctolagus cuniculus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ocu
target	/db/trest/Ocu_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ocu est_ocu

name	UniGene Oryzias latipes contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ola
target	/db/trest/Ola_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ola est_ola

name	UniGene Oncorhynchus mykiss contigs
host	sib-db1
source	/scratch/frt/ug/stamp.omy
target	/db/trest/Omy_contigs.seq
command	/home/dbmirror/src/mirrorUGC Omy est_omy

name	UniGene Oryza sativa contigs
host	sib-db1
source	/scratch/frt/ug/stamp.riz
target	/db/trest/Os_contigs.seq
command	/home/dbmirror/src/mirrorUGC Os est_riz

name	UniGene Petromyzon marinus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.pma
target	/db/trest/Pma_contigs.seq
command	/home/dbmirror/src/mirrorUGC Pma est_pma

name	UniGene Pimephales promelas contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ppr
target	/db/trest/Ppr_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ppr est_ppr

name	UniGene Populus balsamifera contigs
host	sib-db1
source	/scratch/frt/ug/stamp.pba
target	/db/trest/Pba_contigs.seq
command	/home/dbmirror/src/mirrorUGC Pba est_pba

name	UniGene Populus trichocarpa contigs
host	sib-db1
source	/scratch/frt/ug/stamp.pth
target	/db/trest/Pth_contigs.seq
command	/home/dbmirror/src/mirrorUGC Pth est_pth

name	UniGene Picea glauca contigs
host	sib-db1
source	/scratch/frt/ug/stamp.pgl
target	/db/trest/Pgl_contigs.seq
command	/home/dbmirror/src/mirrorUGC Pgl est_pgl

name	UniGene Phytophthora infestans contigs
host	sib-db1
source	/scratch/frt/ug/stamp.pin
target	/db/trest/Pin_contigs.seq
command	/home/dbmirror/src/mirrorUGC Pin est_pin

name	UniGene Physcomitrella patens contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ppa
target	/db/trest/Ppa_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ppa est_ppa

name	UniGene Picea sitchensis contigs
host	sib-db1
source	/scratch/frt/ug/stamp.psi
target	/db/trest/Psi_contigs.seq
command	/home/dbmirror/src/mirrorUGC Psi est_psi

name	UniGene Pinus taeda contigs
host	sib-db1
source	/scratch/frt/ug/stamp.pta
target	/db/trest/Pta_contigs.seq
command	/home/dbmirror/src/mirrorUGC Pta est_pta

name	UniGene Populus tremula x Populus tremuloides contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ptr
target	/db/trest/Ptp_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ptp est_ptr

name	UniGene Rattus norvegicus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.rat
target	/db/trest/Rn_contigs.seq
command	/home/dbmirror/src/mirrorUGC Rn est_rat

name	UniGene Sorghum bicolor contigs
host	sib-db1
source	/scratch/frt/ug/stamp.sbi
target	/db/trest/Sbi_contigs.seq
command	/home/dbmirror/src/mirrorUGC Sbi est_sbi

name	UniGene Schistosoma japonicum contigs
host	sib-db1
source	/scratch/frt/ug/stamp.sja
target	/db/trest/Sja_contigs.seq
command	/home/dbmirror/src/mirrorUGC Sja est_sja

name	UniGene Schistosoma mansoni contigs
host	sib-db1
source	/scratch/frt/ug/stamp.sma
target	/db/trest/Sma_contigs.seq
command	/home/dbmirror/src/mirrorUGC Sma est_sma

name	UniGene Saccharum officinarum contigs
host	sib-db1
source	/scratch/frt/ug/stamp.sof
target	/db/trest/Sof_contigs.seq
command	/home/dbmirror/src/mirrorUGC Sof est_sof

name	UniGene Strongylocentrotus purpuratus contigs
host	sib-db1
source	/scratch/frt/ug/stamp.spu
target	/db/trest/Spu_contigs.seq
command	/home/dbmirror/src/mirrorUGC Spu est_spu

name	UniGene Salmo salar contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ssa
target	/db/trest/Ssa_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ssa est_ssa

name	UniGene Sus scrofa contigs
host	sib-db1
source	/scratch/frt/ug/stamp.pig
target	/db/trest/Ssc_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ssc est_pig

name	UniGene Taeniopygia guttata contigs
host	sib-db1
source	/scratch/frt/ug/stamp.tgu
target	/db/trest/Tgu_contigs.seq
command	/home/dbmirror/src/mirrorUGC Tgu est_tgu

name	UniGene Tribolium castaneum contigs
host	sib-db1
source	/scratch/frt/ug/stamp.tca
target	/db/trest/Tca_contigs.seq
command	/home/dbmirror/src/mirrorUGC Tca est_tca

name	UniGene Xenopus tropicalis contigs
host	sib-db1
source	/scratch/frt/ug/stamp.xtr
target	/db/trest/Str_contigs.seq
command	/home/dbmirror/src/mirrorUGC Str est_xtr

name	UniGene Solanum tuberosum contigs
host	sib-db1
source	/scratch/frt/ug/stamp.pdt
target	/db/trest/Stu_contigs.seq
command	/home/dbmirror/src/mirrorUGC Stu est_pdt

name	UniGene Triticum aestivum contigs
host	sib-db1
source	/scratch/frt/ug/stamp.ble
target	/db/trest/Ta_contigs.seq
command	/home/dbmirror/src/mirrorUGC Ta est_ble

name	UniGene Toxoplasma gondii contigs
host	sib-db1
source	/scratch/frt/ug/stamp.tgo
target	/db/trest/Tgo_contigs.seq
command	/home/dbmirror/src/mirrorUGC Tgo est_tgo

name	UniGene Takifugu rubripes contigs
host	sib-db1
source	/scratch/frt/ug/stamp.fgu
target	/db/trest/Tru_contigs.seq
command	/home/dbmirror/src/mirrorUGC Tru est_fgu

name	UniGene Vitis vinifera contigs
host	sib-db1
source	/scratch/frt/ug/stamp.vvi
target	/db/trest/Vvi_contigs.seq
command	/home/dbmirror/src/mirrorUGC Vvi est_vvi

name	UniGene Xenopus laevis contigs
host	sib-db1
source	/scratch/frt/ug/stamp.xen
target	/db/trest/Xl_contigs.seq
command	/home/dbmirror/src/mirrorUGC Xl est_xen

name	UniGene Zea mays contigs
host	sib-db1
source	/scratch/frt/ug/stamp.zea
target	/db/trest/Zm_contigs.seq
command	/home/dbmirror/src/mirrorUGC Zm est_zea

# update BLAST server

name	NCBI BLAST UniGene all DNA 2
host	frt
source	/db/unigene/Hs_UG.seq
target	/scratch/frt/blastnet/database/UG.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/unigene -e 'UG.seq' -b /scratch/frt/blastnet/database -p UG.stamp

name	NCBI BLAST UniGene all contigs DNA 2
host	frt
source	/db/trest/stamp.seq.trest
target	/scratch/frt/blastnet/database/contigs_dna.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/trest -e 'contigs.seq' -b /scratch/frt/blastnet/database -p contigs_dna.stamp

name	NCBI BLAST UniGene all contigs PEP 2
host	frt
source	/db/trest/stamp.pep.trest
target	/scratch/frt/blastnet/database/contigs_pep.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/trest -e 'contigs_pep.seq' -b /scratch/frt/blastnet/database -p contigs_pep.stamp

name	NCBI BLAST UniGene all DNA 2
host	sib-gm1
source	/db/unigene/Hs_UG.seq
target	/paracel/paracel/pbroot/UG.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/unigene -e 'UG.seq' -b /paracel/paracel/pbroot -p UG.stamp

name	NCBI BLAST UniGene all contigs DNA 2
host	sib-gm1
source	/db/trest/Hs_contigs.seq
target	/paracel/paracel/pbroot/contigs_dna.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/trest -e 'contigs.seq' -b /paracel/paracel/pbroot -p contigs_dna.stamp

name	NCBI BLAST UniGene all contigs PEP 2
host	sib-gm1
source	/db/trest/Hs_contigs_pep.seq
target	/paracel/paracel/pbroot/contigs_pep.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t p -s /db/trest -e 'contigs_pep.seq' -b /paracel/paracel/pbroot -p contigs_pep.stamp

# update GeneMatcher

#name	GM - UniGene all contigs DNA
#host	ludwig-gm1
#source	/db/trest/stamp.seq.trest
#target	/usr/local/gm/dbstamps/all_contigs.dna
#command	/home/dbmirror/src/chewAllForGM -t n -s /db/trest -e 'contigs.seq' -p /usr/local/gm/dbstamps/all_contigs.dna

#name	GM - UniGene all contigs PEP
#host	ludwig-gm1
#source	/db/trest/stamp.pep.trest
#target	/usr/local/gm/dbstamps/all_contigs.pep
#command	/home/dbmirror/src/chewAllForGM -t p -s /db/trest -e 'contigs_pep.seq' -p /usr/local/gm/dbstamps/all_contigs.pep

# update SuperBugs

name	SuperBugs -All UniGene contigs DNA database
host	isrec-insect9
source	/db/trest/stamp.seq.trest
target	/export/data/dna/Hs_contigs.seq
command	/home/dbmirror/src/beetleloadall -f /db/trest/*contigs.seq /export/data/dna 2>&1

name	SuperBugs - All UniGene contigs PEP database
host	isrec-insect9
source	/db/trest/stamp.pep.trest
target	/export/data/prot/Hs_contigs_pep.seq
command	/home/dbmirror/src/beetleloadall -f /db/trest/*contigs_pep.seq /export/data/prot 2>&1

################################################################################
#   trome
################################################################################

name    trome Homo sapiens
host    sib-sun12 
source  /db/trome/hum/tromer/chrom1_r.seq
target  /net/sib-sun12/export/scratch/trome/stamp.hs
command /home/dbmirror/src/boogies_trome Hs

name    trome Mus musculus
host    sib-sun12
source  /db/trome/mus/tromer/chrom1_r.seq
target  /net/sib-sun12/export/scratch/trome/stamp.mm
command /home/dbmirror/src/boogies_trome Mm

name    trome Drosophila melanogaster
host    sib-sun12
source  /db/trome/dro/tromer/chrom2L_r.seq
target  /net/sib-sun12/export/scratch/trome/stamp.dm
command /home/dbmirror/src/boogies_trome Dm

name    trome Caenorhabditis elegans
host    sib-sun12
source  /db/trome/wrm/tromer/chrom1_r.seq
target  /net/sib-sun12/export/scratch/trome/stamp.ce
command /home/dbmirror/src/boogies_trome Ce

name    trome Rattus norvegicus
host    sib-sun12
source  /db/trome/rat/tromer/chrom1_r.seq
target  /net/sib-sun12/export/scratch/trome/stamp.rn
command /home/dbmirror/src/boogies_trome Rn

name    trome Homo sapiens
host    sib-db1
source  /net/sib-sun12/export/scratch/trome/stamp.hs
target  /db/trome_pub/Hs_trome_pep.dat
command /home/dbmirror/src/mirror_trome Hs sib-sun12

name    trome Mus musculus
host    sib-db1
source  /net/sib-sun12/export/scratch/trome/stamp.mm
target  /db/trome_pub/Mm_trome_pep.dat
command /home/dbmirror/src/mirror_trome Mm sib-sun12

name    trome Drosophila melanogaster 
host    sib-db1
source  /net/sib-sun12/export/scratch/trome/stamp.dm
target  /db/trome_pub/Dm_trome_pep.dat
command /home/dbmirror/src/mirror_trome Dm sib-sun12

name    trome Caenorhabditis elegans 
host    sib-db1
source  /net/sib-sun12/export/scratch/trome/stamp.ce
target  /db/trome_pub/Ce_trome_pep.dat
command /home/dbmirror/src/mirror_trome Ce sib-sun12

name    trome Rattus norvegicus 
host    sib-db1
source  /net/sib-sun12/export/scratch/trome/stamp.rn
target  /db/trome_pub/Rn_trome_pep.dat
command /home/dbmirror/src/mirror_trome Rn sib-sun12

name    NCBI BLAST UniGene all contigs PEP 2
host    frt
source  /db/trome_pub/stamp.pep.trome
target  /scratch/frt/blastnet/database/contigs_pep.stamp
command /home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/trome_pub -e '_pep.seq' -b /scratch/frt/blastnet/database -p contigs_pep.stamp

name    NCBI BLAST UniGene all contigs PEP 2
host    sib-gm1
source  /db/trome_pub/stamp.pep.trome
target  /paracel/paracel/pbroot/contigs_pep.stamp
command /paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t p -s /db/trome_pub -e '_pep.seq' -b /paracel/paracel/pbroot -p contigs_pep.stamp

name    NCBI BLAST human transcriptome mRNA
host    frt
source  /db/trome/hum/tromer/chrom1_r.seq
target  /scratch/frt/blastnet/database/hs_chrom1_r.nsq
command /home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/trome/hum/tromer -e '_r.seq' -b /scratch/frt/blastnet/database -x hs_

name    NCBI BLAST human transcriptome pep
host    frt
source  /db/trome/hum/tromer/chrom1_p.seq
target  /scratch/frt/blastnet/database/hs_chrom1_p.psq
command /home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/trome/hum/tromer -e '_p.seq' -b /scratch/frt/blastnet/database -x hs_

################################################################################
#   EMBL
################################################################################

name	EMBL Update
host	sib-db1
source	/database/stamps/embu
target	/db/embl/vrt-up.seq
command	/home/dbmirror/src/switchEmblUpd

name	NCBI BLAST embl DNA 2
host	frt
source	/db/embl/fun-re.seq
target	/scratch/frt/blastnet/database/fun-re.nsq
command	/home/local/blastnet/dbmirror/chewEmblForBlast -f ncbi -b /scratch/frt/blastnet/database -e re

name	NCBI BLAST embl updates DNA 2
host	frt
source	/db/embl/fun-up.seq
target	/scratch/frt/blastnet/database/fun-up.nsq
command	/home/local/blastnet/dbmirror/chewEmblForBlast -f ncbi -b /scratch/frt/blastnet/database -e up

name	NCBI BLAST embl DNA 2
host	sib-gm1
source	/db/embl/fun-re.seq
target	/paracel/paracel/pbroot/fun-re.nsq
command	/paracel/paracel/dbmirror/src/chewEmblForBlast -f ncbi -b /paracel/paracel/pbroot -e re

name	NCBI BLAST embl updates DNA 2
host	sib-gm1
source	/db/embl/fun-up.seq
target	/paracel/paracel/pbroot/fun-up.nsq
command	/paracel/paracel/dbmirror/src/chewEmblForBlast -f ncbi -b /paracel/paracel/pbroot -e up

#name	GM - EMBL Release
#host	ludwig-gm1
#source	/db/embl/vrt-re.seq
#target	/usr/local/gm/dbstamps/embl.stamp
#command	/home/dbmirror/src/chewEmblForGM EMBL re

#name	GM - EMBL Update
#host	ludwig-gm1
#source	/db/embl/vrt-up.seq
#target	/usr/local/gm/dbstamps/embu.stamp
#command	/home/dbmirror/src/chewEmblForGM EMBL up

################################################################################
#  Arabidopsis thaliana 
################################################################################

name    NCBI BLAST ATH1.seq DNA 2
host    frt
source  /db/genome/A_thaliana/ath1/ATH1.seq
target  /scratch/frt/blastnet/database/athseq.nsq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t n -n athseq -s /db/genome/A_thaliana/ath1/ATH1.seq -b /scratch/frt/blastnet/database

name    NCBI BLAST ATH1.cds DNA 2
host    frt
source  /db/genome/A_thaliana/ath1/ATH1.cds
target  /scratch/frt/blastnet/database/athcds.nsq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t n -n athcds -s /db/genome/A_thaliana/ath1/ATH1.cds -b /scratch/frt/blastnet/database

name    NCBI BLAST ATH1.pep PEP 2
host    frt
source  /db/genome/A_thaliana/ath1/ATH1.pep
target  /scratch/frt/blastnet/database/athpep.psq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n athpep -s /db/genome/A_thaliana/ath1/ATH1.pep -b /scratch/frt/blastnet/database

name    NCBI BLAST ATH1.seq DNA 2
host    sib-gm1
source  /db/genome/A_thaliana/ath1/ATH1.seq
target  /paracel/paracel/pbroot/athseq.nsq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n athseq -s /db/genome/A_thaliana/ath1/ATH1.seq -b /paracel/paracel/pbroot

name    NCBI BLAST ATH1.cds DNA 2
host    sib-gm1
source  /db/genome/A_thaliana/ath1/ATH1.cds
target  /paracel/paracel/pbroot/athcds.nsq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n athcds -s /db/genome/A_thaliana/ath1/ATH1.cds -b /paracel/paracel/pbroot

name    NCBI BLAST ATH1.pep PEP 2
host    sib-gm1
source  /db/genome/A_thaliana/ath1/ATH1.pep
target  /paracel/paracel/pbroot/athpep.psq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n athpep -s /db/genome/A_thaliana/ath1/ATH1.pep -b /paracel/paracel/pbroot

################################################################################
#  IPI International Protein Index database
################################################################################

name    NCBI BLAST IPI_human PEP 2
host    frt
source  /db/ipi/ipi.HUMAN.fasta
target  /scratch/frt/blastnet/database/ipi_hum.psq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n ipi_hum -s /db/ipi/ipi.HUMAN.fasta -b /scratch/frt/blastnet/database

name    NCBI BLAST IPI_mouse PEP 2
host    frt
source  /db/ipi/ipi.MOUSE.fasta
target  /scratch/frt/blastnet/database/ipi_mus.psq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n ipi_mus -s /db/ipi/ipi.MOUSE.fasta -b /scratch/frt/blastnet/database

name    NCBI BLAST IPI_rat PEP 2
host    frt
source  /db/ipi/ipi.RAT.fasta
target  /scratch/frt/blastnet/database/ipi_rat.psq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n ipi_rat -s /db/ipi/ipi.RAT.fasta -b /scratch/frt/blastnet/database

name    NCBI BLAST IPI_arath PEP 2
host    frt
source  /db/ipi/ipi.ARATH.fasta
target  /scratch/frt/blastnet/database/ipi_arath.psq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n ipi_arath -s /db/ipi/ipi.ARATH.fasta -b /scratch/frt/blastnet/database

name    NCBI BLAST IPI_bovin PEP 2
host    frt
source  /db/ipi/ipi.BOVIN.fasta
target  /scratch/frt/blastnet/database/ipi_bovin.psq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n ipi_bovin -s /db/ipi/ipi.BOVIN.fasta -b /scratch/frt/blastnet/database

name    NCBI BLAST IPI_chick PEP 2
host    frt
source  /db/ipi/ipi.CHICK.fasta
target  /scratch/frt/blastnet/database/ipi_chick.psq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n ipi_chick -s /db/ipi/ipi.CHICK.fasta -b /scratch/frt/blastnet/database

name    NCBI BLAST IPI_brare PEP 2
host    frt
source  /db/ipi/ipi.BRARE.fasta
target  /scratch/frt/blastnet/database/ipi_brare.psq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n ipi_brare -s /db/ipi/ipi.BRARE.fasta -b /scratch/frt/blastnet/database

name    NCBI BLAST IPI_human PEP 2
host    sib-gm1
source  /db/ipi/ipi.HUMAN.fasta
target  /paracel/paracel/pbroot/ipi_hum.psq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n ipi_hum -s /db/ipi/ipi.HUMAN.fasta -b /paracel/paracel/pbroot

name    NCBI BLAST IPI_mouse PEP 2
host    sib-gm1
source  /db/ipi/ipi.MOUSE.fasta
target  /paracel/paracel/pbroot/ipi_mus.psq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n ipi_mus -s /db/ipi/ipi.MOUSE.fasta -b /paracel/paracel/pbroot

name    NCBI BLAST IPI_rat PEP 2
host    sib-gm1
source  /db/ipi/ipi.RAT.fasta
target  /paracel/paracel/pbroot/ipi_rat.psq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n ipi_rat -s /db/ipi/ipi.RAT.fasta -b /paracel/paracel/pbroot

name    NCBI BLAST IPI_arath PEP 2
host    sib-gm1
source  /db/ipi/ipi.ARATH.fasta
target  /paracel/paracel/pbroot/ipi_arath.psq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n ipi_arath -s /db/ipi/ipi.ARATH.fasta -b /paracel/paracel/pbroot

name    NCBI BLAST IPI_bovin PEP 2
host    sib-gm1
source  /db/ipi/ipi.BOVIN.fasta
target  /paracel/paracel/pbroot/ipi_bovin.psq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n ipi_bovin -s /db/ipi/ipi.BOVIN.fasta -b /paracel/paracel/pbroot

name    NCBI BLAST IPI_chick PEP 2
host    sib-gm1
source  /db/ipi/ipi.CHICK.fasta
target  /paracel/paracel/pbroot/ipi_chick.psq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n ipi_chick -s /db/ipi/ipi.CHICK.fasta -b /paracel/paracel/pbroot

name    NCBI BLAST IPI_brare PEP 2
host    sib-gm1
source  /db/ipi/ipi.BRARE.fasta
target  /paracel/paracel/pbroot/ipi_brare.psq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n ipi_brare -s /db/ipi/ipi.BRARE.fasta -b /paracel/paracel/pbroot

################################################################################
# Candida albicans protein and DNA database
################################################################################
name    Generic download boogies_db/candida
host    sib-db1
source  /database/stamps/dbupdate
target  /home/dbmirror/etc/dbupdate.stamp
command /home/dbmirror/src/store_db /home/dbmirror/etc/candida.dbconf

name    Candida albicans peptides
host    frt
source  /db/candida/Ca-Assembly19.orf_trans
target  /scratch/frt/blastnet/database/Ca_pep.psq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n Ca_pep -s /db/candida/Ca-Assembly19.orf_trans -b /scratch/frt/blastnet/database

name    Candida albicans peptides nr
host    frt
source  /db/candida/Ca-Assembly19.orf_trans_nr
target  /scratch/frt/blastnet/database/Ca_pep_nr.psq
command /home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n Ca_pep_nr -s /db/candida/Ca-Assembly19.orf_trans_nr -b /scratch/frt/blastnet/database

name    Candida albicans peptides
host    sib-gm1
source  /db/candida/Ca-Assembly19.orf_trans
target  /paracel/paracel/pbroot/Ca_pep.psq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n Ca_pep -s /db/candida/Ca-Assembly19.orf_trans -b /paracel/paracel/pbroot

name    Candida albicans peptides nr
host    sib-gm1
source  /db/candida/Ca-Assembly19.orf_trans_nr
target  /paracel/paracel/pbroot/Ca_pep_nr.psq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n Ca_pep_nr -s /db/candida/Ca-Assembly19.orf_trans_nr -b /paracel/paracel/pbroot

name    Candida albicans contigs
host    sib-gm1
source  /db/candida/Ca-Assembly19.contigs
target  /paracel/paracel/pbroot/Ca_contigs.nsq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n Ca_contigs -s /db/candida/Ca-Assembly19.contigs -b /paracel/paracel/pbroot

name    Candida albicans contigs
host    sib-gm1
source  /db/candida/Ca-Assembly19.orf
target  /paracel/paracel/pbroot/Ca_orf.nsq
command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n Ca_orf -s /db/candida/Ca-Assembly19.orf -b /paracel/paracel/pbroot

################################################################################
#   Yeast
################################################################################

name	Yeast peptides
host	sib-db1
source	/database/stamps/sptrnr
target	/db/yeast/yeastpep.seq
command	/home/dbmirror/src/storeDb -s yeastpep.idx.Z -s yeastpep.seq.Z -s yeastpep.tab -s README.mirror -t /db/yeast

name	NCBI BLAST yeast DNA 2
host	frt
source	/db/genome/S_cerevisiae/chrom1.seq
target	/scratch/frt/blastnet/database/sce.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/genome/S_cerevisiae -b /scratch/frt/blastnet/database -x sce_ -p sce.stamp

name	NCBI BLAST yeast PEP 2
host	frt
source	/db/yeast/yeastpep.seq
target	/scratch/frt/blastnet/database/yeast.psq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n yeast -s /db/yeast/yeastpep.seq -b /scratch/frt/blastnet/database

name	NCBI BLAST yeast DNA 2
host	sib-gm1
source	/db/genome/S_cerevisiae/chrom1.seq
target	/paracel/paracel/pbroot/sce.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/genome/S_cerevisiae -b /paracel/paracel/pbroot -x sce_ -p sce.stamp

name	NCBI BLAST yeast PEP 2
host	sib-gm1
source	/db/yeast/yeastpep.seq
target	/paracel/paracel/pbroot/yeast.psq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n yeast -s /db/yeast/yeastpep.seq -b /paracel/paracel/pbroot

#name	GM - yeast PEP
#host	ludwig-gm1
#source	/db/yeast/yeastpep.seq
#target	/usr/local/gm/dbstamps/yeast.pep
#command	/home/dbmirror/src/chewForGM -t p -n yeast -s /db/yeast/yeastpep.seq -p /usr/local/gm/dbstamps/yeast.pep

################################################################################
#   Worm
################################################################################

name	Worm peptides
host	sib-db1
source	/database/stamps/sptrnr
target	/db/worm/wormpep.seq
command	/home/dbmirror/src/storeDb -s wormpep.idx.Z -s wormpep.seq.Z -s README.mirror -t /db/worm

name	NCBI BLAST worm DNA 2
host	frt
source	/db/worm/worm.dna
target	/scratch/frt/blastnet/database/worm.nsq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t n -n worm -s /db/worm/worm.dna -b /scratch/frt/blastnet/database

name	NCBI BLAST worm PEP 2
host	frt
source	/db/worm/wormpep.seq
target	/scratch/frt/blastnet/database/worm.psq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n worm -s /db/worm/wormpep.seq -b /scratch/frt/blastnet/database

name	NCBI BLAST worm DNA 2
host	sib-gm1
source	/db/worm/worm.dna
target	/paracel/paracel/pbroot/worm.nsq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n worm -s /db/worm/worm.dna -b /paracel/paracel/pbroot

name	NCBI BLAST worm PEP 2
host	sib-gm1
source	/db/worm/wormpep.seq
target	/paracel/paracel/pbroot/worm.psq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n worm -s /db/worm/wormpep.seq -b /paracel/paracel/pbroot

# Seems not to work...
#name	GM - worm DNA
#host	ludwig-gm1
#source	/db/worm/worm.dna
#target	/usr/local/gm/dbstamps/worm.dna
#command	/home/dbmirror/src/chewForGM -t n -n worm -s /db/worm/worm.dna -p /usr/local/gm/dbstamps/worm.dna

#name	GM - worm PEP
#host	ludwig-gm1
#source	/db/worm/wormpep.seq
#target	/usr/local/gm/dbstamps/worm.pep
#command	/home/dbmirror/src/chewForGM -t p -n worm -s /db/worm/wormpep.seq -p /usr/local/gm/dbstamps/worm.pep

################################################################################
#   CRC Non-redundant (nr)
################################################################################

# Next one should come after the peptides are in place (i.e., those above :-)
name	Generate new nr using CRC
host	sib-db1
source	/db/swiss-prot/swiss.seq
target	/db/nr_prot/swiss_nr.seq
command	/home/dbmirror/src/genCRCnr

name	NCBI BLAST nr from CRC all PEP 2
host	frt
source	/db/nr_prot/swiss_nr.seq
target	/scratch/frt/blastnet/database/nr_prot.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/nr_prot -e seq -b /scratch/frt/blastnet/database -p nr_prot.stamp

name	NCBI BLAST nr from CRC all PEP 2
host	sib-gm1
source	/db/nr_prot/swiss_nr.seq
target	/paracel/paracel/pbroot/nr_prot.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t p -s /db/nr_prot -e seq -b /paracel/paracel/pbroot -p nr_prot.stamp

#name	GM - nr from CRC all PEP
#host	ludwig-gm1
#source	/db/nr_prot/swiss_nr.seq
#target	/usr/local/gm/dbstamps/nr_prot.pep
#command	/home/dbmirror/src/chewAllForGM -t p -s /db/nr_prot -e seq -p /usr/local/gm/dbstamps/nr_prot.pep

#name    SuperBugs nr from CRC all PEP
#host    isrec-insect9
#source  /db/nr_prot/trembl_new_nr.seq
#target  /export/data/prot/trembl_new_nr.seq
#command /home/dbmirror/src/beetleloadall -f /db/nr_prot/*.seq /export/data/prot 2>&1

################################################################################
#   ESTs 
################################################################################

# Orestes 

name	NCBI BLAST orestes DNA 2
host	frt
source	/db/orestes/orestes.seq
target	/scratch/frt/blastnet/database/orestes.nsq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t n -n orestes -s /db/orestes/orestes.seq -b /scratch/frt/blastnet/database

name	NCBI BLAST orestes PEP 2
host	frt
source	/db/orestes/orestes_pep.seq
target	/scratch/frt/blastnet/database/orestes_pep.psq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t p -n orestes_pep -s /db/orestes/orestes_pep.seq -b /scratch/frt/blastnet/database

name	NCBI BLAST orestes DNA 2
host	sib-gm1
source	/db/orestes/orestes.seq
target	/paracel/paracel/pbroot/orestes.nsq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n orestes -s /db/orestes/orestes.seq -b /paracel/paracel/pbroot

name	NCBI BLAST orestes PEP 2
host	sib-gm1
source	/db/orestes/orestes_pep.seq
target	/paracel/paracel/pbroot/orestes_pep.psq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t p -n orestes_pep -s /db/orestes/orestes_pep.seq -b /paracel/paracel/pbroot

#name	GM - orestes DNA
#host	ludwig-gm1
#source	/db/orestes/orestes.seq
#target	/usr/local/gm/dbstamps/orestes.dna
#command	/home/dbmirror/src/chewForGM -t n -n orestes -s /db/orestes/orestes.seq -p /usr/local/gm/dbstamps/orestes.dna

#name	GM - orestes PEP
#host	ludwig-gm1
#source	/db/orestes/orestes_pep.seq
#target	/usr/local/gm/dbstamps/orestes.pep
#command	/home/dbmirror/src/chewForGM -t p -n orestes_pep -s /db/orestes/orestes_pep.seq -p /usr/local/gm/dbstamps/orestes.pep

name	SuperBugs - Orestes DNA
host	isrec-insect9
source	/db/orestes/orestes.seq
target	/export/data/dna/orestes.seq
command	/home/dbmirror/src/beetleload -f /db/orestes/orestes.seq /export/data/dna/orestes.seq 2>&1

name	SuperBugs - Orestes PEP
host	isrec-insect9
source	/db/orestes/orestes_pep.seq
target	/export/data/prot/orestes_pep.seq
command	/home/dbmirror/src/beetleload -f /db/orestes/orestes_pep.seq /export/data/prot/orestes_pep.seq 2>&1

# Other, non-unigene ESTs

name	NCBI BLAST Not UniGene all ESTs DNA 2
host	frt
source	/db/dbest/stamp.seq.trest
target	/scratch/frt/blastnet/database/est_nu_dna.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/dbest -e 'nu.seq' -b /scratch/frt/blastnet/database -p est_nu_dna.stamp

name	NCBI BLAST Not UniGene all ESTs PEP 2
host	frt
source	/db/dbest/stamp.pep.trest
target	/scratch/frt/blastnet/database/est_nu_pep.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/dbest -e 'nu_pep.seq' -b /scratch/frt/blastnet/database -p est_nu_pep.stamp

name	NCBI BLAST Not UniGene all ESTs DNA 2
host	sib-gm1
source	/db/dbest/est_hum-nu.seq
target	/paracel/paracel/pbroot/est_nu_dna.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/dbest -e 'nu.seq' -b /paracel/paracel/pbroot -p est_nu_dna.stamp

name	NCBI BLAST Not UniGene all ESTs PEP 2
host	sib-gm1
source	/db/dbest/est_hum-nu_pep.seq
target	/paracel/paracel/pbroot/est_nu_pep.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t p -s /db/dbest -e 'nu_pep.seq' -b /paracel/paracel/pbroot -p est_nu_pep.stamp

name	SuperBugs - EST all release DNA database
host	isrec-insect9
source	/db/dbest/est_hum-re.seq
target	/export/data/dna/est_hum-re.seq
command	/home/dbmirror/src/beetleloadall -f /db/dbest/*re.seq /export/data/dna 2>&1

name	SuperBugs - EST all update DNA database
host	isrec-insect9
source	/db/dbest/est_hum-up.seq
target	/export/data/dna/est_hum-up.seq
command	/home/dbmirror/src/beetleloadall -f /db/dbest/*up.seq /export/data/dna 2>&1

name	SuperBugs - EST all not-UniGene DNA database
host	isrec-insect9
source	/db/dbest/stamp.seq.trest
target	/export/data/dna/est_hum-nu.seq
command	/home/dbmirror/src/beetleloadall -f /db/dbest/*nu.seq /export/data/dna 2>&1

name	SuperBugs - EST all not-UniGene PEP database
host	isrec-insect9
source	/db/dbest/stamp.pep.trest
target	/export/data/prot/est_hum-nu_pep.seq
command	/home/dbmirror/src/beetleloadall -f /db/dbest/*nu_pep.seq /export/data/prot 2>&1

################################################################################
#   Predicted coding sequences and peptides
################################################################################
#name    TrGen Human build
#host    noko01
#source  /db/genome/H_sapiens/chromY.seq
#target  /db/trgen/svid_hum.cur
#command /home/vital-it/psperise/src/dotrgenupd Hs

#name    TrGen Mouse build
#host    noko01
#source  /db/genome/M_musculus/chromY.seq
#target  /db/trgen/svid_mus.cur
#command /home/vital-it/psperise/src/dotrgenupd Mm

#name    TrGen Rat build
#host    noko01
#source  /db/genome/R_norvegicus/chromX.seq
#target  /db/trgen/svid_rat.cur
#command /home/vital-it/psperise/src/dotrgenupd Rn

#name    TrGen Drosophila build
#host    noko01
#source  /db/genome/D_melanogaster/chromX.seq
#target  /db/trgen/svid_dro.cur
#command /home/vital-it/psperise/src/dotrgenupd Dm

#name    TrGen Arabidopsis build
#host    noko01
#source  /db/genome/A_thaliana/chrom5.seq
#target  /db/trgen/svid_ara.cur
#command /home/vital-it/psperise/src/dotrgenupd At

#name    TrGen Rice build
#host    noko01
#source  /db/genome/O_sativa_japonica/chrom9.seq
#target  /db/trgen/svid_riz.cur
#command /home/vital-it/psperise/src/dotrgenupd Os

#name	TrGen Human update
#host 	sib-db1	
#source	/scratch/frt/trgen/H/finallist
#target	/db/trgen/svid_hum.cur
#command	cp /database/pool/README.mirror /db/trgen;/home/dbmirror/src/trgenupd H

#name	TrGen Mouse update
#host	sib-db1
#source	/scratch/frt/trgen/M/finallist
#target	/db/trgen/svid_mus.cur
#command	/home/dbmirror/src/trgenupd M

#name	TrGen Rat update
#host	sib-db1
#source	/scratch/frt/trgen/R/finallist
#target	/db/trgen/svid_rat.cur
#command	/home/dbmirror/src/trgenupd R

#name	TrGen Drosophila update
#host	sib-db1
#source	/scratch/frt/trgen/D/finallist
#target	/db/trgen/svid_dro.cur
#command	/home/dbmirror/src/trgenupd D

#name	TrGen Arabidopsis update
#host	sib-db1
#source	/scratch/frt/trgen/A/finallist
#target	/db/trgen/svid_ara.cur
#command	/home/dbmirror/src/trgenupd A

#name   TrGen Rice update
#host   sib-db1
#source /scratch/frt/trgen/O/finallist
#target /db/trgen/svid_riz.cur
#command /home/dbmirror/src/trgenupd O

name	NCBI BLAST Predicted CDS from genome DNA 2
host	frt
source	/db/trgen/prc_hum.seq
target	/scratch/frt/blastnet/database/prc.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/trgen -e 'prc*.seq' -b /scratch/frt/blastnet/database -p prc.stamp

name	NCBI BLAST Predicted protein from all genome PEP 2
host	frt
source	/db/trgen/trg_hum.seq
target	/scratch/frt/blastnet/database/trg.stamp
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t p -s /db/trgen -e 'trg*.seq' -b /scratch/frt/blastnet/database -p trg.stamp

name	NCBI BLAST Predicted CDS from genome DNA 2
host	sib-gm1
source	/db/trgen/prc_hum.seq
target	/paracel/paracel/pbroot/prc.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/trgen -e 'prc*.seq' -b /paracel/paracel/pbroot -p prc.stamp

name	NCBI BLAST Predicted protein from all genome PEP 2
host	sib-gm1
source	/db/trgen/trg_hum.seq
target	/paracel/paracel/pbroot/trg.stamp
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t p -s /db/trgen -e 'trg*.seq' -b /paracel/paracel/pbroot -p trg.stamp

#name	GM - Predicted CDS from all genome DNA
#host	ludwig-gm1
#source	/db/trgen/prc_hum.seq
#target	/usr/local/gm/dbstamps/prc.dna
#command	/home/dbmirror/src/chewAllForGM -t n -s /db/trgen -e 'prc*.seq' -p /usr/local/gm/dbstamps/prc.dna

#name	GM - Predicted protein from all genome PEP
#host	ludwig-gm1
#source	/db/trgen/trg_hum.seq
#target	/usr/local/gm/dbstamps/trg.pep
#command	/home/dbmirror/src/chewAllForGM -t p -s /db/trgen -e 'trg*.seq' -p /usr/local/gm/dbstamps/trg.pep

################################################################################
#   Repbase
################################################################################

name	NCBI BLAST repbase DNA 2
host	frt
source	/db/repbase/humrep.seq
target	/scratch/frt/blastnet/database/humrep.nsq
command	/home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -s /db/repbase -e seq -b /scratch/frt/blastnet/database

name	NCBI BLAST repbase DNA 2
host	sib-gm1 
source	/db/repbase/humrep.seq
target	/paracel/paracel/pbroot/humrep.nsq
command	/paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -s /db/repbase -e seq -b /paracel/paracel/pbroot

#name	GM - repbase DNA
#host	ludwig-gm1
#source	/db/repbase/humrep.seq
#target	/usr/local/gm/dbstamps/repbase.stamp
#command	/home/dbmirror/src/chewAllForGM -t n -s /db/repbase -p /usr/local/gm/dbstamps/repbase.stamp

################################################################################
#   Plasmodium
################################################################################

#name    NCBI BLAST TIGRc14_reads DNA 2
#host    sib-blast
#source  /db/plasmodium/TIGRc14_reads.seq
#target  /export/database/TIGRc14_reads.nsq
#command /home/dbmirror/src/chewForBlast -f ncbi -t n -n TIGRc14_reads -s /db/plasmodium/TIGRc14_reads.seq -b /export/database

#name    NCBI BLAST TIGRc14_contigs DNA 2
#host    sib-blast
#source  /db/plasmodium/TIGRc14_contigs.seq
#target  /export/database/TIGRc14_contigs.nsq
#command /home/dbmirror/src/chewForBlast -f ncbi -t n -n TIGRc14_contigs -s /db/plasmodium/TIGRc14_contigs.seq -b /export/database

#name    NCBI BLAST WHOc14_reads DNA 2
#host    sib-blast
#source  /db/plasmodium/WHOc14_reads.seq
#target  /export/database/WHOc14_reads.nsq
#command /home/dbmirror/src/chewForBlast -f ncbi -t n -n WHOc14_reads -s /db/plasmodium/WHOc14_reads.seq -b /export/database

#name    NCBI BLAST WHOc14_contigs DNA 2
#host    sib-blast
#source  /db/plasmodium/WHOc14_contigs.seq
#target  /export/database/WHOc14_contigs.nsq
#command /home/dbmirror/src/chewForBlast -f ncbi -t n -n WHOc14_contigs -s /db/plasmodium/WHOc14_contigs.seq -b /export/database

#name    NCBI BLAST TIGRc14_reads DNA 2
#host    sib-gm1
#source  /db/plasmodium/TIGRc14_reads.seq
#target  /paracel/paracel/pbroot/TIGRc14_reads.nsq
#command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n TIGRc14_reads -s /db/plasmodium/TIGRc14_reads.seq -b /paracel/paracel/pbroot

#name    NCBI BLAST TIGRc14_contigs DNA 2
#host    sib-gm1
#source  /db/plasmodium/TIGRc14_contigs.seq
#target  /paracel/paracel/pbroot/TIGRc14_contigs.nsq
#command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n TIGRc14_contigs -s /db/plasmodium/TIGRc14_contigs.seq -b /paracel/paracel/pbroot

#name    NCBI BLAST WHOc14_reads DNA 2
#host    sib-gm1
#source  /db/plasmodium/WHOc14_reads.seq
#target  /paracel/paracel/pbroot/WHOc14_reads.nsq
#command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n WHOc14_reads -s /db/plasmodium/WHOc14_reads.seq -b /paracel/paracel/pbroot

#name    NCBI BLAST WHOc14_contigs DNA 2
#host    sib-gm1
#source  /db/plasmodium/WHOc14_contigs.seq
#target  /paracel/paracel/pbroot/WHOc14_contigs.nsq
#command /paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n WHOc14_contigs -s /db/plasmodium/WHOc14_contigs.seq -b /paracel/paracel/pbroot

################################################################################
#   Genomes
################################################################################
name    NCBI BLAST UCSC C. reinhardtii Draft Genome
host    sib-gm1
source  /db/genome/draft/C_reinhardtii/cre.stamp
target  /paracel/paracel/pbroot/cre.stamp
command /paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/genome/draft/C_reinhardtii/ -e 'dna.seq' -prefix 'cre_' -b /paracel/paracel/pbroot -p cre.stamp

name    NCBI BLAST UCSC C. reinhardtii Draft Genome
host    frt
source  /db/genome/draft/C_reinhardtii/cre.stamp
target  /scratch/frt/blastnet/database/cre.stamp
command /home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/genome/draft/C_reinhardtii/ -e 'dna.seq' -prefix 'cre_' -b /scratch/frt/blastnet/database -p cre.stamp

################################################################################
#   Odds and ends
################################################################################

name	NCBI BLAST epd DNA 2
host	frt
source	/db/epd/current/epd.seq
target	/scratch/frt/blastnet/database/epd.nsq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t n -n epd -s /db/epd/current/epd.seq -b /scratch/frt/blastnet/database

name	NCBI BLAST epd DNA 2
host	sib-gm1
source	/home/epd/current/epd.seq
target	/paracel/paracel/pbroot/epd.nsq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n epd -s /home/epd/current/epd.seq -b /paracel/paracel/pbroot

name	NCBI BLAST epd bulk DNA 2
host	frt
source	/db/epd/current/epd_bulk.seq
target	/scratch/frt/blastnet/database/epd_bulk.nsq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t n -n epd_bulk -s /db/epd/current/epd_bulk.seq -b /scratch/frt/blastnet/database

name	NCBI BLAST epd bulk DNA 2
host	sib-gm1
source	/home/epd/current/epd_bulk.seq
target	/paracel/paracel/pbroot/epd_bulk.nsq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n epd_bulk -s /home/epd/current/epd_bulk.seq -b /paracel/paracel/pbroot

# Commented out 06.09.2004, Volker
#name	SEREX self-comparison database
#host	ludwig-sun1
#source	/export/mirror/www-ludwig/SEREX/database/serex
#target	/export/mirror/www-ludwig/SEREX/duplications.html
#command	/usr/molbio/perl/selfcomp /export/mirror/www-ludwig/SEREX/database/serex > /export/mirror/www-ludwig/SEREX/duplications.html
#
#name	Public SEREX self-comparison
#host	ludwig-sun1
#source	/export/mirror/www-ludwig/SEREX/database/serex-pub
#target	/export/mirror/www-ludwig/SEREX/dups.html
#command	/usr/molbio/perl/selfcomp /export/mirror/www-ludwig/SEREX/database/serex-pub > /export/mirror/www-ludwig/SEREX/dups.html

name	NCBI BLAST pombe DNA 2
host	frt
source	/db/genome/S_pombe/chrom1.seq
target	/scratch/frt/blastnet/database/spo.stamp
command /home/local/blastnet/dbmirror/chewAllForBlast -f ncbi -t n -s /db/genome/S_pombe -b /scratch/frt/blastnet/database -x spo_ -p spo.stamp

name	NCBI BLAST vector DNA 2
host	frt
source	/db/vector/vector.seq
target	/scratch/frt/blastnet/database/vector.nsq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t n -n vector -s /db/vector/vector.seq -b /scratch/frt/blastnet/database

name	NCBI BLAST pombe DNA 2
host	sib-gm1
source	/db/genome/S_pombe/chrom1.seq
target	/paracel/paracel/pbroot/spo.stamp
command /paracel/paracel/dbmirror/src/chewAllForBlast -f ncbi -t n -s /db/genome/S_pombe -b /paracel/paracel/pbroot -x spo_ -p spo.stamp

name	NCBI BLAST vector DNA 2
host	sib-gm1
source	/db/vector/vector.seq
target	/paracel/paracel/pbroot/vector.nsq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n vector -s /db/vector/vector.seq -b /paracel/paracel/pbroot

#name	GM - vector DNA
#host	ludwig-gm1
#source	/db/vector/vector.seq
#target	/usr/local/gm/dbstamps/vector.dna
#command	/home/dbmirror/src/chewForGM -t n -n vector -s /db/vector/vector.seq -p /usr/local/gm/dbstamps/vector.dna

name	Enzyme
host	sib-db1
source	/database/pool/enzyme.dat
target	/db/enzyme/enzyme.dat
command	cp /database/pool/enzyme.dat /database/pool/enzyme.idx /database/pool/README.mirror /db/enzyme

name	NCBI BLAST 16s DNA 2
host	frt
source	/db/16S/16S_pro-re.seq
target	/scratch/frt/blastnet/database/16s.nsq
command	/home/local/blastnet/dbmirror/chewForBlast -f ncbi -t n -n 16s -s /db/16S/16S_pro-re.seq -b /scratch/frt/blastnet/database

name	NCBI BLAST 16s DNA 2
host	sib-gm1
source	/db/16S/16S_pro-re.seq
target	/paracel/paracel/pbroot/16s.nsq
command	/paracel/paracel/dbmirror/src/chewForBlast -f ncbi -t n -n 16s -s /db/16S/16S_pro-re.seq -b /paracel/paracel/pbroot

name	GM - DNA farms
host	ludwig-sun1
source	/home/dbmirror/etc/farms.nuc
target	/usr/molbio/share/gm/dna/fun.tbl
command	cd /usr/molbio/share/gm && /home/dbmirror/src/genGMFarms

name	GM - PEP farms
host	ludwig-sun1
source	/home/dbmirror/etc/farms.prot
target	/usr/molbio/share/gm/pep/trest.tbl
command	cd /usr/molbio/share/gm && /home/dbmirror/src/genGMFarms

################################################################################
#   End of File
################################################################################