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sync_delete_with_vrpt.sh
executable file
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sync_delete_with_vrpt.sh
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#!/bin/bash
source ./scripts/env.sh
pdb_id_list=sync_info_pdb_id_list
SRC_DIR=$VALID_REPORT
src_file_ext=_validation.xml.gz
if [ -d $VALID_INFO ] ; then
find $VALID_INFO -maxdepth 1 -name '*.xml' | cut -d '/' -f 2 | cut -d '_' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $VALID_INFO/$pdb_id"_validation.xml"
rm -f $VALID_INFO/$pdb_id"_validation.xml"
fi
done < $pdb_id_list
fi
if [ -d $PDBML_NOATOM_SIFTS ] ; then
find $PDBML_NOATOM_SIFTS -maxdepth 1 -name '*.xml' | cut -d '/' -f 2 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $PDBML_NOATOM_SIFTS/$pdb_id-noatom-sifts.xml.gz
rm -f $PDBML_NOATOM_SIFTS/$pdb_id-noatom-shifts.xml.gz
fi
done < $pdb_id_list
fi
if [ -d $PDBML_EXT ] ; then
find $PDBML_EXT -maxdepth 1 -name '*.xml' | cut -d '/' -f 2 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $PDBML_EXT/$pdb_id-noatom-ext.xml.gz
rm -f $PDBML_EXT/$pdb_id-noatom-ext.xml.gz
fi
done < $pdb_id_list
fi
if [ -d $VALID_INFO_ALT ] ; then
find $VALID_INFO_ALT -maxdepth 1 -name '*.xml' | cut -d '/' -f 2 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $VALID_INFO_ALT/$pdb_id-validation-alt.xml
rm -f $VALID_INFO_ALT/$pdb_id-validation-alt.xml
fi
done < $pdb_id_list
fi
if [ -d $XML_VALID_ALT ] ; then
find $XML_VALID_ALT -maxdepth 1 -name '*.xml' | cut -d '/' -f 2 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $XML_VALID_ALT/$pdb_id-validation-alt.xml
rm -f $XML_VALID_ALT/$pdb_id-validation-alt.xml
fi
done < $pdb_id_list
fi
if [ -d $XML_VALID ] ; then
find $XML_VALID -maxdepth 1 -name '*.xml' | cut -d '/' -f 2 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $XML_VALID/$pdb_id-validation-full.xml
rm -f $XML_VALID/$pdb_id-validation-full.xml
fi
done < $pdb_id_list
fi
if [ -d $RDF_VALID_ALT ] ; then
find $RDF_VALID_ALT -maxdepth 1 -name '*.rdf' | cut -d '/' -f 2 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $RDF_VALID_ALT/$pdb_id-validation-alt.rdf
rm -f $RDF_VALID_ALT/$pdb_id-validation-alt.rdf
fi
done < $pdb_id_list
fi
if [ -d $RDF_VALID ] ; then
find $RDF_VALID -maxdepth 1 -name '*.rdf' | cut -d '/' -f 2 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $RDF_VALID/$pdb_id-validation-full.rdf
rm -f $RDF_VALID/$pdb_id-validation-full.rdf
fi
done < $pdb_id_list
fi
if [ -d $MMCIF_VALID_ALT ] ; then
find $MMCIF_VALID_ALT -maxdepth 1 -name '*.cif' | cut -d '/' -f 2 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $MMCIF_VALID_ALT/$pdb_id-validation-alt.cif
rm -f $MMCIF_VALID_ALT/$pdb_id-validation-alt.cif
fi
done < $pdb_id_list
fi
if [ -d $MMCIF_VALID ] ; then
find $MMCIF_VALID -maxdepth 1 -name '*.cif' | cut -d '/' -f 2 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $MMCIF_VALID/$pdb_id-validation-full.cif
rm -f $MMCIF_VALID/$pdb_id-validation-full.cif
fi
done < $pdb_id_list
fi
if [ -d $XML_VALID_ALT ] ; then
find $XML_VALID_ALT -mindepth 2 -name '*.xml.gz' | cut -d '/' -f 3 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $XML_VALID_ALT/${pdb_id:1:2}/$pdb_id-validation-alt.xml.gz
rm -f $XML_VALID_ALT/${pdb_id:1:2}/$pdb_id-validation-alt.xml.gz
fi
done < $pdb_id_list
fi
if [ -d $XML_VALID ] ; then
find $XML_VALID -mindepth 2 -name '*.xml.gz' | cut -d '/' -f 3 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $XML_VALID/${pdb_id:1:2}/$pdb_id-validation-full.xml.gz
rm -f $XML_VALID/${pdb_id:1:2}/$pdb_id-validation-full.xml.gz
fi
done < $pdb_id_list
fi
if [ -d $RDF_VALID_ALT ] ; then
find $RDF_VALID_ALT -mindepth 2 -name '*.rdf.gz' | cut -d '/' -f 3 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $RDF_VALID_ALT/${pdb_id:1:2}/$pdb_id/$pdb_id-validation-alt.rdf.gz
rm -f $RDF_VALID_ALT/${pdb_id:1:2}/$pdb_id-validation-alt.rdf.gz
fi
done < $pdb_id_list
fi
if [ -d $RDF_VALID ] ; then
find $RDF_VALID -mindepth 2 -name '*.rdf.gz' | cut -d '/' -f 3 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $RDF_VALID/${pdb_id:1:2}/$pdb_id/$pdb_id-validation-full.rdf.gz
rm -f $RDF_VALID/${pdb_id:1:2}/$pdb_id-validation-full.rdf.gz
fi
done < $pdb_id_list
fi
if [ -d $MMCIF_VALID_ALT ] ; then
find $MMCIF_VALID_ALT -mindepth 2 -name '*.cif.gz' | cut -d '/' -f 3 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $MMCIF_VALID_ALT/${pdb_id:1:2}/$pdb_id/$pdb_id-validation-alt.cif.gz
rm -f $MMCIF_VALID_ALT/${pdb_id:1:2}/$pdb_id-validation-alt.cif.gz
fi
done < $pdb_id_list
fi
if [ -d $MMCIF_VALID ] ; then
find $MMCIF_VALID -mindepth 2 -name '*.cif.gz' | cut -d '/' -f 3 | cut -d '-' -f 1 > $pdb_id_list
while read pdb_id ; do
if [ ! -e $SRC_DIR/${pdb_id:1:2}/$pdb_id/$pdb_id$src_file_ext ] ; then
echo deleting $MMCIF_VALID/${pdb_id:1:2}/$pdb_id/$pdb_id-validation-full.cif.gz
rm -f $MMCIF_VALID/${pdb_id:1:2}/$pdb_id-validation-full.cif.gz
fi
done < $pdb_id_list
fi
rm -f $pdb_id_list