Configuration.default

#!/bin/sh

#
# Configuration.default
#
# Source this file from any bourne shell script to set the
# env variables
#
#
#  If the MGICONFIG environment variable does not have a local override,
#  use the default "live" settings.
#
if [ "${MGICONFIG}" = "" ]
then
    MGICONFIG=/usr/local/mgi/live/mgiconfig
    export MGICONFIG
fi

. ${MGICONFIG}/master.config.sh

# output dir
CACHEDIR=${DATALOADSOUTPUT}/mgi/snpcacheload

# data directory
CACHEDATADIR=${CACHEDIR}/output

# logs directory
CACHELOGSDIR=${CACHEDIR}/logs

# directory in which to archive the contents of output and logs directories
ARCHIVEDIR=${CACHEDIR}/archive

export CACHEDIR CACHEDATADIR CACHELOGSDIR ARCHIVEDIR

# dbsnpload snpmarker cache load log 
SNPMARKER_LOG=${CACHELOGSDIR}/snpmarker.log

# weekly snpmarker wrapper log
SNPMARKER_WKLY_LOG=${CACHELOGSDIR}/snpmarker_weekly.log

export SNPMARKER_LOG SNPMARKER_WKLY_LOG

# mgd refseq _LogicalDB_key
REFSEQ_LOGICALDB_KEY=27

# mgd SNP_ConsensusSnp_Marker _MGIType_key
SNPMRKR_MGITYPE_KEY=32

# mgd refSNP _LogicalDB_key
CS_LOGICALDB_KEY=73

# mgd SNP_ConsensusSnp _LogicalDB_key
CS_MGITYPE_KEY=30

export REFSEQ_LOGICALDB_KEY SNPMRKR_MGITYPE_KEY CS_LOGICALDB_KEY CS_MGITYPE_KEY

# mgd EntrezGene _LogicalDB_key
EG_LOGICALDB_KEY=55

# mgd MRK_Marker _MGIType_key
MRKR_MGITYPE_KEY=2

export EG_LOGICALDB_KEY MRKR_MGITYPE_KEY

# snp table and bcp file names 
ACC_TABLE=SNP_RefSeq_Accession
ACC_FILE=${ACC_TABLE}.bcp

export ACC_TABLE ACC_FILE

TMP_FXN_TABLE=TMP_SNP_Marker_Fxn
TMP_FXN_FILE=${TMP_FXN_TABLE}.bcp

export TMP_FXN_TABLE TMP_FXN_FILE

SNP_MRK_TABLE=SNP_ConsensusSnp_Marker
SNP_MRK_FILE=${SNP_MRK_TABLE}.bcp
SNP_MRK_WITHIN_FILE=${SNP_MRK_TABLE}_Within.bcp

export SNP_MRK_TABLE SNP_MRK_FILE SNP_MRK_WITHIN_FILE

MRKLOC_CACHETABLE=MRK_Location_Cache
MRKLOC_CACHEFILE=${MRKLOC_CACHETABLE}.bcp

export MRKLOC_CACHETABLE MRKLOC_CACHEFILE

# max number of lines per bcp file to keep below 2G
MAX_BCP_LINES=25000000 

# max number of ConsensusSnp keys in a snpmrkwithin.py query batch
MAX_QUERY_BATCH=100000

export MAX_BCP_LINES MAX_QUERY_BATCH

# Are dbSNP and MGI coordinates synchronized (same mouse genome build) ?
IN_SYNC=yes

export IN_SYNC