copyFiles.sh

echo "Clear previous Ensembl data from the public all subdirs of ${ATLAS_FTP}/bioentity_properties"
for dir in ensembl mirbase reactome go interpro wbps; do
   rm -rf ${ATLAS_FTP}/bioentity_properties/${dir}/*
done

echo "Copy all array design mapping files into the public Ensembl data directory (this directory is used only for Solr index build)"
cp ${ATLAS_PROD}/bioentity_properties/ensembl/*.A-*.tsv ${ATLAS_FTP}/bioentity_properties/ensembl/

pushd ${ATLAS_PROD}/bioentity_properties/ensembl
echo "Copy all Ensembl matrices to the public Ensembl data directory"
for species in $(ls *.tsv | awk -F"." '{print $1}' | sort | uniq); do
    for bioentity in ensgene enstranscript ensprotein; do
    	cp $species.$bioentity.tsv ${ATLAS_FTP}/bioentity_properties/ensembl/
    done
done
popd

pushd ${ATLAS_PROD}/bioentity_properties/wbps
echo "Copy all WBPS matrices to the public WBPS data directory"
for species in $(ls *.tsv | awk -F"." '{print $1}' | sort | uniq); do
    for bioentity in wbpsgene wbpstranscript wbpsprotein; do
        cp $species.$bioentity.tsv ${ATLAS_FTP}/bioentity_properties/wbps/
    done
done
popd

echo "Copy all files to the other public data directories"
for dir in mirbase reactome go interpro; do
       cp ${ATLAS_PROD}/bioentity_properties/${dir}/*.tsv ${ATLAS_FTP}/bioentity_properties/${dir}/
done