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added test for chlorodb

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Former-commit-id: 639cbbdc91a6c7f11544dbbe1fa0c47e1e28eaad
Former-commit-id: 59f6ff3f727d01f3ed4d553a554b322b24119b06
This commit is contained in:
alain viari
2015-11-13 18:53:47 +01:00
parent 13b03062d5
commit 42707c281c
17 changed files with 433 additions and 12 deletions
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27
detectors/cds/tools/chlorodb/go_chlorodb.sh
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@@ -35,6 +35,7 @@ cd $DB_BASE/info
#
if (! -e $DB_BASE/parameters.sh) then
Notify "no $DB_BASE/parameters.sh found : creating one for you"
@ n = `find $DB_BASE/download -depth 1 -type f -print | wc -l`
@ cor_cutoff = $n / 2
@ atg_cutoff = $n / 10
@@ -70,7 +71,9 @@ if (! -e $DB_BASE/parameters.sh) then
echo "set DUST_PMAX = 1e-6" >> $DB_BASE/parameters.sh
echo "set DUST_IDMIN = 30" >> $DB_BASE/parameters.sh
echo "set DUST_SIZMIN = 10" >> $DB_BASE/parameters.sh
Cat $DB_BASE/parameters.sh
else
Notify "DB parameters : $DB_BASE/parameters.sh"
endif
source $DB_BASE/parameters.sh
@@ -198,12 +201,34 @@ if (-e db.core.pat.txt) then
Notify "Making core DB (take some time... please wait)"
$PROG_DIR/subdb/go_subdb.sh db.prot.fst db.core.pat.txt \
$CORE_DELTA $CORE_COVMIN $CORE_PMAX $CORE_IDMIN $CORE_SIZMIN
# add discarded entries into shell
if (-e db.core.pat.db/Annot.lst) then
sort db.core.pat.txt > A_$$
sort db.core.pat.db/Annot.lst > B_$$
join -a1 A_$$ B_$$ | awk '(NF==3) {print $0}' > C_$$
set n = `cat C_$$ | wc -l`
Notify "transfering $n discarded entries to shell"
cat C_$$ >> db.shell.pat.txt
\rm -f ?_$$
endif
endif
if (-e db.shell.pat.txt) then
Notify "Making shell DB (take some time... please wait)"
$PROG_DIR/subdb/go_subdb.sh db.prot.fst db.shell.pat.txt \
$SHEL_DELTA $SHEL_COVMIN $SHEL_PMAX $SHEL_IDMIN $SHEL_SIZMIN
# add discarded entries into dust
if (-e db.shell.pat.db/Annot.lst) then
sort db.shell.pat.txt > A_$$
sort db.shell.pat.db/Annot.lst > B_$$
join -a1 A_$$ B_$$ | awk '(NF==3) {print $0}' >> C_$$
set n = `cat C_$$ | wc -l`
Notify "transfering $n discarded entries to dust"
cat C_$$ >> db.dust.pat.txt
\rm -f ?_$$
endif
endif
if (-e db.dust.pat.txt) then