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_________________ __ __ __| _/|__|/ |_
/ ___\_` __ \__ \ | | \/ __ | | \\_ __\
/ /_/ > | \// __ \| | / /_/ | | || |
\___ /|__| (____ /____/\____ | |__||__|
/_____/ \/ \/
grep rough audit - static analysis tool
v2.8 written by @Wireghoul
=================================[justanotherhacker.com]===
cod-tools-3.1.0+dfsg/tools/mkshdepend-52- if( $value =~ /\$\((.+)\)/ ) {
cod-tools-3.1.0+dfsg/tools/mkshdepend:53: my $expansion = `$1`;
cod-tools-3.1.0+dfsg/tools/mkshdepend-54- chomp $expansion;
##############################################
cod-tools-3.1.0+dfsg/tools/mkshdepend-61- if( $value =~ /\`(.+)\`/ ) {
cod-tools-3.1.0+dfsg/tools/mkshdepend:62: my $expansion = `$1`;
cod-tools-3.1.0+dfsg/tools/mkshdepend-63- chomp $expansion;
##############################################
cod-tools-3.1.0+dfsg/tools/mkdiffdepend-41- my @dependencies =
cod-tools-3.1.0+dfsg/tools/mkdiffdepend:42: split( "\n", `tools/mkshdepend $filename | head -n -3` );
cod-tools-3.1.0+dfsg/tools/mkdiffdepend-43- my $prereq;
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_007.sh-13-
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_007.sh:14:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_007.sh-15-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_005.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_005.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_005.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_005.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_005.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_005.sh:30: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_005.sh-31-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_002.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_002.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_002.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_002.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_002.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_002.sh:30: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_002.sh-31-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_find_duplicates_003.sh-11-unset LANG
cod-tools-3.1.0+dfsg/tests/shtests/cif_find_duplicates_003.sh:12:unset `printenv | grep LC_ | awk -F= '{print $1}'`
cod-tools-3.1.0+dfsg/tests/shtests/cif_find_duplicates_003.sh-13-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_008.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_008.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_008.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_008.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_008.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_008.sh:30: CIF_CORE="`basename ${CIF} .cif`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_008.sh-31-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_008.sh:32: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_008.sh-33-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_003.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_003.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_003.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_001.sh-13-
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_001.sh:14:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_001.sh-15-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_003.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_003.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_003.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_003.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_003.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_003.sh:30: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_003.sh-31-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_006.sh-11-
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_006.sh:12:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_006.sh-13-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_005.sh-13-
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_005.sh:14:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_005.sh-15-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_004.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_004.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_004.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_004.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_004.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_004.sh:30: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_004.sh-31-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_006.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_006.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_006.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_006.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_006.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_006.sh:30: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_006.sh-31-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_002.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_002.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_002.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/find_numbers_003.sh-5-unset LANG
cod-tools-3.1.0+dfsg/tests/shtests/find_numbers_003.sh:6:unset `printenv | grep LC_ | awk -F= '{print $1}'`
cod-tools-3.1.0+dfsg/tests/shtests/find_numbers_003.sh-7-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_007.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_007.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_007.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_007.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_007.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_007.sh:30: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_007.sh-31-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_011.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_011.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_011.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_011.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_011.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_011.sh:30: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_011.sh-31-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_002.sh-13-
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_002.sh:14:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_002.sh-15-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_010.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_010.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_010.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_010.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_010.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_010.sh:30: CIF_CORE="`basename ${CIF} .cif`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_010.sh-31-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_010.sh:32: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_010.sh-33-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_005.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_005.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_005.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_003.sh-13-
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_003.sh:14:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_003.sh-15-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_hkl_check_002.sh-10-
cod-tools-3.1.0+dfsg/tests/shtests/cif_hkl_check_002.sh:11:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_hkl_check_002.sh-12-test -z "${TMP_DIR}" && TMP_DIR="."
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_find_duplicates_006.sh-13-
cod-tools-3.1.0+dfsg/tests/shtests/cif_find_duplicates_006.sh:14:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_find_duplicates_006.sh-15-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_009.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_009.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_009.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_009.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_009.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_009.sh:30: CIF_CORE="`basename ${CIF} .cif`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_009.sh-31-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_009.sh:32: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_009.sh-33-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_004.sh-11-
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_004.sh:12:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_tcod_tree_004.sh-13-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_004.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_004.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_004.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_001.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_001.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_001.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_hkl_check_001.sh-10-
cod-tools-3.1.0+dfsg/tests/shtests/cif_hkl_check_001.sh:11:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_hkl_check_001.sh-12-test -z "${TMP_DIR}" && TMP_DIR="."
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_001.sh-9-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_001.sh:10:BASENAME="`basename $0 .sh`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_001.sh-11-
##############################################
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_001.sh-28-
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_001.sh:29: CIF_BASE="`basename ${CIF}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_001.sh:30: script_base="`basename ${cif_split}`"
cod-tools-3.1.0+dfsg/tests/shtests/cif_split_primitive_001.sh-31-
##############################################
cod-tools-3.1.0+dfsg/src/components/codcif/inputs/ciftbx/1hyh.cif-51- Other_details: German Collection Of Microorganisms (Dsm)
cod-tools-3.1.0+dfsg/src/components/codcif/inputs/ciftbx/1hyh.cif:52: Number Dsm 20196, Cell Plasm
cod-tools-3.1.0+dfsg/src/components/codcif/inputs/ciftbx/1hyh.cif-53-;
##############################################
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/origs/ciftbx/1hyh.cif-51- Other_details: German Collection Of Microorganisms (Dsm)
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/origs/ciftbx/1hyh.cif:52: Number Dsm 20196, Cell Plasm
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/origs/ciftbx/1hyh.cif-53-;
##############################################
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2-126- for file in $vd/origs/vcif/*; do {
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2:127: bn=`basename $file`
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2:128: $vcif `cat ${vd}/args/vcif/${bn}.args` $file > $vd/gens/vcif/${bn}.result;
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2-129- } ;
##############################################
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2-132- for file in $vd/origs/vcif/*; do {
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2:133: bn=`basename $file`
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2-134- diff $vd/outs/vcif/${bn}.result $vd/gens/vcif/${bn}.result > $vd/errs/vcif/${bn}.diff;
##############################################
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2-160- for file in $vd/origs/cif2cbf/*.cif; do {
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2:161: bn=`basename $file`
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2:162: echo $cif2cbf `cat ${vd}/args/cif2cbf/${bn}.args` $file \> $vd/gens/cif2cbf/${bn}.result 2\>\&1;
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2:163: $cif2cbf `cat ${vd}/args/cif2cbf/${bn}.args` $file > $vd/gens/cif2cbf/${bn}.result 2>&1;
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2-164- } ;
##############################################
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2-167- for file in $vd/origs/cif2cbf/*.cif; do {
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2:168: bn=`basename $file`
cod-tools-3.1.0+dfsg/src/components/codcif/data/IUCr/CIFTEST_2.1/ciftest2-169- diff $vd/outs/cif2cbf/${bn}.result $vd/gens/cif2cbf/${bn}.result > $vd/errs/cif2cbf/${bn}.diff;
##############################################
cod-tools-3.1.0+dfsg/src/components/codcif/Makefile-379- do \
cod-tools-3.1.0+dfsg/src/components/codcif/Makefile:380: printf "%-20s " `basename $$i` ; \
cod-tools-3.1.0+dfsg/src/components/codcif/Makefile-381- printf "%s %-11s " \
cod-tools-3.1.0+dfsg/src/components/codcif/Makefile:382: `bash -c "time ./$< ${TEST_OPTIONS} $$i > /dev/null" 2>&1` \
cod-tools-3.1.0+dfsg/src/components/codcif/Makefile-383- | awk '{print $$1, $$2}' ; \
##############################################
cod-tools-3.1.0+dfsg/src/components/codcif/Makefile-391- do \
cod-tools-3.1.0+dfsg/src/components/codcif/Makefile:392: printf "%-20s " `basename $$i` ; \
cod-tools-3.1.0+dfsg/src/components/codcif/Makefile:393: printf "%4d\n" `./$< ${SIZE_OPTIONS} $$i 2> /dev/null | wc -l` ; \
cod-tools-3.1.0+dfsg/src/components/codcif/Makefile-394- done | tee -a $@
##############################################
cod-tools-3.1.0+dfsg/src/lib/perl5/COD/CIF/Data/CODNumbers.pm-1153- my $sth = $dbh->prepare(
cod-tools-3.1.0+dfsg/src/lib/perl5/COD/CIF/Data/CODNumbers.pm:1154: "SELECT $column_list FROM `$database->{table}` ".
cod-tools-3.1.0+dfsg/src/lib/perl5/COD/CIF/Data/CODNumbers.pm-1155- 'WHERE (formula = ? OR calcformula = ? OR cellformula = ?)' .
##############################################
cod-tools-3.1.0+dfsg/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-32-${SWIG_SO_FILE}: ${OBJS}
cod-tools-3.1.0+dfsg/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module:33: ${CC} ${CFLAGS} -Wall `perl -MConfig -e 'print $$Config{lddlflags}'` ${LDFLAGS} $^ -o $@ -lsymspg
cod-tools-3.1.0+dfsg/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-34-
##############################################
cod-tools-3.1.0+dfsg/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-37- -I. -c \
cod-tools-3.1.0+dfsg/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module:38: `perl -MConfig -e 'print join(" ", @Config{qw(ccflags optimize cccdlflags)}, "-I$$Config{archlib}/CORE")'` \
cod-tools-3.1.0+dfsg/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-39- $+
##############################################
cod-tools-3.1.0+dfsg/scripts/find_numbers-81-my $COD_cif_dir = pop @ARGV;
cod-tools-3.1.0+dfsg/scripts/find_numbers:82:my @COD_cif_files = `find $COD_cif_dir -name "*.cif" -o -name "*.CIF"`;
cod-tools-3.1.0+dfsg/scripts/find_numbers-83-
##############################################
cod-tools-3.1.0+dfsg/scripts/sdf_add_cod_data-41- --options|--option|--optio|--opti|--opt|--op|--o)
cod-tools-3.1.0+dfsg/scripts/sdf_add_cod_data:42: echo "`basename $0`:: The '--options' option is a placeholder."
cod-tools-3.1.0+dfsg/scripts/sdf_add_cod_data:43: echo "`basename $0`:: It should be replaced by one of the following options:"
cod-tools-3.1.0+dfsg/scripts/sdf_add_cod_data-44- awk '/#\* OPTIONS:/,/#\*\*/ {
##############################################
cod-tools-3.1.0+dfsg/scripts/sdf_add_cod_data-63- ;;
cod-tools-3.1.0+dfsg/scripts/sdf_add_cod_data:64: -*) echo "`basename $0`:: ERROR, unknown option '$1'." >&2 ; exit 1 ;;
cod-tools-3.1.0+dfsg/scripts/sdf_add_cod_data-65- *) FILES="$FILES '$1'" ;;
##############################################
cod-tools-3.1.0+dfsg/scripts/codcif2sdf-30-
cod-tools-3.1.0+dfsg/scripts/codcif2sdf:31:setvar BASENAME = "`basename $0`"
cod-tools-3.1.0+dfsg/scripts/codcif2sdf-32-
##############################################
cod-tools-3.1.0+dfsg/scripts/codcif2sdf-58- --options|--option|--optio|--opti|--opt|--op|--o)
cod-tools-3.1.0+dfsg/scripts/codcif2sdf:59: echo "`basename $0`:: The '--options' option is a placeholder."
cod-tools-3.1.0+dfsg/scripts/codcif2sdf:60: echo "`basename $0`:: It should be replaced by one of the following options:"
cod-tools-3.1.0+dfsg/scripts/codcif2sdf-61- awk '/#\* OPTIONS:/,/#\*\*/ {
##############################################
cod-tools-3.1.0+dfsg/scripts/codcif2sdf-80- ;;
cod-tools-3.1.0+dfsg/scripts/codcif2sdf:81: -*) echo "`basename $0`:: ERROR, unknown option '$1'." >&2 ; exit 1 ;;
cod-tools-3.1.0+dfsg/scripts/codcif2sdf-82- *) FILES="$FILES '$1'" ;;
##############################################
cod-tools-3.1.0+dfsg/scripts/cif_find_duplicates-228-my $COD_cif_dir = pop @ARGV;
cod-tools-3.1.0+dfsg/scripts/cif_find_duplicates:229:my @COD_cif_files = `find $COD_cif_dir -name "*.cif" -o -name "*.CIF" | sort`;
cod-tools-3.1.0+dfsg/scripts/cif_find_duplicates-230-
##############################################
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-390- my $sth = $dbh->prepare(
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:391: "SELECT id FROM `$database->{tables}{structures}` ORDER BY id" .
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-392- (defined $limit ? " LIMIT " . $limit : "") . ";"
##############################################
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-410- entry_id, label, composition_id, spacegroup_id
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:411: FROM `$database->{tables}{structures}` WHERE id = ?;"
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-412- );
##############################################
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-427- band_gap, converged, runtime, delta_e
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:428: FROM `$database->{tables}{calculations}` AS C
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:429: LEFT JOIN `$database->{tables}{formation_energies}`
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-430- ON calculation_id = C.id
##############################################
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-446- "SELECT type, value
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:447: FROM `$database->{tables}{calculations_meta_data}` AS CMD
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:448: JOIN `$database->{tables}{meta_data}` AS MD
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-449- ON CMD.metadata_id = MD.id
##############################################
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-471- "SELECT number, hm, hall, schoenflies, lattice_system
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:472: FROM `$database->{tables}{spacegroups}` WHERE number = ?;"
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-473- );
##############################################
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-494- wyckoffsites.z as wz
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:495: FROM `$database->{tables}{atoms}`
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:496: JOIN `$database->{tables}{sites}`
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:497: ON site_id = `$database->{tables}{sites}`.id
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:498: JOIN `$database->{tables}{wyckoffsites}`
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:499: ON `$database->{tables}{sites}`.wyckoff_id =
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:500: `$database->{tables}{wyckoffsites}`.id
cod-tools-3.1.0+dfsg/scripts/oqmd2cif:501: WHERE `$database->{tables}{atoms}`.structure_id = ?;"
cod-tools-3.1.0+dfsg/scripts/oqmd2cif-502- );
##############################################
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit-46-
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit:47:setvar BASENAME = "`basename $0`"
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit-48-
##############################################
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit-335- --options|--option|--optio|--opti|--opt|--op|--o)
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit:336: echo "`basename $0`:: The '--options' option is a placeholder."
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit:337: echo "`basename $0`:: It should be replaced by one of the following options:"
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit-338- awk '/#\* OPTIONS:/,/#\*\*/ {
##############################################
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit-357- ;;
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit:358: -*) echo "`basename $0`:: ERROR, unknown option '$1'." >&2 ; exit 1 ;;
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit-359- *) CIF_FILES="$CIF_FILES $1" ;;
##############################################
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit-368-then
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit:369: echo "`basename $0`:: ERROR, cannot accept Fobs files together with \
cod-tools-3.1.0+dfsg/scripts/cif_cod_deposit-370-more than one CIF file." >&2
##############################################
cod-tools-3.1.0+dfsg/scripts/molcif2sdf-30-
cod-tools-3.1.0+dfsg/scripts/molcif2sdf:31:setvar BASENAME = "`basename $0`"
cod-tools-3.1.0+dfsg/scripts/molcif2sdf-32-
##############################################
cod-tools-3.1.0+dfsg/scripts/molcif2sdf-58- --options|--option|--optio|--opti|--opt|--op|--o)
cod-tools-3.1.0+dfsg/scripts/molcif2sdf:59: echo "`basename $0`:: The '--options' option is a placeholder."
cod-tools-3.1.0+dfsg/scripts/molcif2sdf:60: echo "`basename $0`:: It should be replaced by one of the following options:"
cod-tools-3.1.0+dfsg/scripts/molcif2sdf-61- awk '/#\* OPTIONS:/,/#\*\*/ {
##############################################
cod-tools-3.1.0+dfsg/scripts/molcif2sdf-80- ;;
cod-tools-3.1.0+dfsg/scripts/molcif2sdf:81: -*) echo "`basename $0`:: ERROR, unknown option '$1'." >&2 ; exit 1 ;;
cod-tools-3.1.0+dfsg/scripts/molcif2sdf-82- *) FILES="$FILES '$1'" ;;
##############################################
cod-tools-3.1.0+dfsg/scripts/cif_CODify-25- --options|--option|--optio|--opti|--opt|--op|--o)
cod-tools-3.1.0+dfsg/scripts/cif_CODify:26: echo "`basename $0`:: The '--options' option is a placeholder."
cod-tools-3.1.0+dfsg/scripts/cif_CODify:27: echo "`basename $0`:: It should be replaced by one of the following options:"
cod-tools-3.1.0+dfsg/scripts/cif_CODify-28- awk '/#\* OPTIONS:/,/#\*\*/ {
##############################################
cod-tools-3.1.0+dfsg/scripts/cif_CODify-32- print $0
cod-tools-3.1.0+dfsg/scripts/cif_CODify:33: }' `which ${CIF_FILTER}` < /dev/null
cod-tools-3.1.0+dfsg/scripts/cif_CODify-34- echo "$0:: NOTE, the option list was retrieved from the '${CIF_FILTER}' script."
##############################################
cod-tools-3.1.0+dfsg/scripts/cif_CODify-46- print $0
cod-tools-3.1.0+dfsg/scripts/cif_CODify:47: }' `which ${CIF_FILTER}` < /dev/null
cod-tools-3.1.0+dfsg/scripts/cif_CODify-48- echo "$0:: NOTE, the option list was retrieved from the '${CIF_FILTER}' script."
##############################################
cod-tools-3.1.0+dfsg/scripts/cif_CODify-88-
cod-tools-3.1.0+dfsg/scripts/cif_CODify:89:NUMBER=`basename ${file} .cif | sed -e 's/[^0-9]//g'`
cod-tools-3.1.0+dfsg/scripts/cif_CODify-90-
##############################################
cod-tools-3.1.0+dfsg/scripts/cod2rdf-324- "SELECT name, url_prefix, url_postfix " .
cod-tools-3.1.0+dfsg/scripts/cod2rdf:325: "FROM `$database{definition_table}`",
cod-tools-3.1.0+dfsg/scripts/cod2rdf-326- { Slice => {} }
##############################################
cod-tools-3.1.0+dfsg/scripts/cod2rdf-344- rdf_relations.uri_prefix AS vocabulary_uri_prefix
cod-tools-3.1.0+dfsg/scripts/cod2rdf:345: FROM `$table`
cod-tools-3.1.0+dfsg/scripts/cod2rdf-346- JOIN rdf_relations
##############################################
cod-tools-3.1.0+dfsg/debian/patches/hardening.diff-147- ${SWIG_SO_FILE}: ${OBJS}
cod-tools-3.1.0+dfsg/debian/patches/hardening.diff:148:- ${CC} -Wall `perl -MConfig -e 'print $$Config{lddlflags}'` $^ -o $@
cod-tools-3.1.0+dfsg/debian/patches/hardening.diff:149:+ ${CC} ${CFLAGS} -Wall `perl -MConfig -e 'print $$Config{lddlflags}'` ${LDFLAGS} $^ -o $@
cod-tools-3.1.0+dfsg/debian/patches/hardening.diff-150-
##############################################
cod-tools-3.1.0+dfsg/debian/patches/hardening.diff-154- -I. -I${SPGLIB_DIR}/src -c \
cod-tools-3.1.0+dfsg/debian/patches/hardening.diff:155: `perl -MConfig -e 'print join(" ", @Config{qw(ccflags optimize cccdlflags)}, "-I$$Config{archlib}/CORE")'` \
cod-tools-3.1.0+dfsg/debian/patches/hardening.diff-156- $+
##############################################
cod-tools-3.1.0+dfsg/debian/patches/spglib.diff-17- ${SWIG_SO_FILE}: ${OBJS}
cod-tools-3.1.0+dfsg/debian/patches/spglib.diff:18:- ${CC} ${CFLAGS} -Wall `perl -MConfig -e 'print $$Config{lddlflags}'` ${LDFLAGS} $^ -o $@
cod-tools-3.1.0+dfsg/debian/patches/spglib.diff:19:+ ${CC} ${CFLAGS} -Wall `perl -MConfig -e 'print $$Config{lddlflags}'` ${LDFLAGS} $^ -o $@ -lsymspg
cod-tools-3.1.0+dfsg/debian/patches/spglib.diff-20-
##############################################
cod-tools-3.1.0+dfsg/debian/patches/spglib.diff-24-+ -I. -c \
cod-tools-3.1.0+dfsg/debian/patches/spglib.diff:25: `perl -MConfig -e 'print join(" ", @Config{qw(ccflags optimize cccdlflags)}, "-I$$Config{archlib}/CORE")'` \
cod-tools-3.1.0+dfsg/debian/patches/spglib.diff-26- $+
##############################################
cod-tools-3.1.0+dfsg/.pc/codcif-svnversion.diff/src/components/codcif/Makefile-379- do \
cod-tools-3.1.0+dfsg/.pc/codcif-svnversion.diff/src/components/codcif/Makefile:380: printf "%-20s " `basename $$i` ; \
cod-tools-3.1.0+dfsg/.pc/codcif-svnversion.diff/src/components/codcif/Makefile-381- printf "%s %-11s " \
cod-tools-3.1.0+dfsg/.pc/codcif-svnversion.diff/src/components/codcif/Makefile:382: `bash -c "time ./$< ${TEST_OPTIONS} $$i > /dev/null" 2>&1` \
cod-tools-3.1.0+dfsg/.pc/codcif-svnversion.diff/src/components/codcif/Makefile-383- | awk '{print $$1, $$2}' ; \
##############################################
cod-tools-3.1.0+dfsg/.pc/codcif-svnversion.diff/src/components/codcif/Makefile-391- do \
cod-tools-3.1.0+dfsg/.pc/codcif-svnversion.diff/src/components/codcif/Makefile:392: printf "%-20s " `basename $$i` ; \
cod-tools-3.1.0+dfsg/.pc/codcif-svnversion.diff/src/components/codcif/Makefile:393: printf "%4d\n" `./$< ${SIZE_OPTIONS} $$i 2> /dev/null | wc -l` ; \
cod-tools-3.1.0+dfsg/.pc/codcif-svnversion.diff/src/components/codcif/Makefile-394- done | tee -a $@
##############################################
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-32-${SWIG_SO_FILE}: ${OBJS}
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module:33: ${CC} -Wall `perl -MConfig -e 'print $$Config{lddlflags}'` $^ -o $@
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-34-
##############################################
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-37- -I. -I${SPGLIB_DIR}/src -c \
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module:38: `perl -MConfig -e 'print join(" ", @Config{qw(ccflags optimize cccdlflags)}, "-I$$Config{archlib}/CORE")'` \
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-39- $+
##############################################
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/components/codcif/Makefile-379- do \
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/components/codcif/Makefile:380: printf "%-20s " `basename $$i` ; \
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/components/codcif/Makefile-381- printf "%s %-11s " \
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/components/codcif/Makefile:382: `bash -c "time ./$< ${TEST_OPTIONS} $$i > /dev/null" 2>&1` \
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/components/codcif/Makefile-383- | awk '{print $$1, $$2}' ; \
##############################################
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/components/codcif/Makefile-391- do \
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/components/codcif/Makefile:392: printf "%-20s " `basename $$i` ; \
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/components/codcif/Makefile:393: printf "%4d\n" `./$< ${SIZE_OPTIONS} $$i 2> /dev/null | wc -l` ; \
cod-tools-3.1.0+dfsg/.pc/hardening.diff/src/components/codcif/Makefile-394- done | tee -a $@
##############################################
cod-tools-3.1.0+dfsg/.pc/spglib.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-32-${SWIG_SO_FILE}: ${OBJS}
cod-tools-3.1.0+dfsg/.pc/spglib.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module:33: ${CC} ${CFLAGS} -Wall `perl -MConfig -e 'print $$Config{lddlflags}'` ${LDFLAGS} $^ -o $@
cod-tools-3.1.0+dfsg/.pc/spglib.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-34-
##############################################
cod-tools-3.1.0+dfsg/.pc/spglib.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-37- -I. -I${SPGLIB_DIR}/src -c \
cod-tools-3.1.0+dfsg/.pc/spglib.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module:38: `perl -MConfig -e 'print join(" ", @Config{qw(ccflags optimize cccdlflags)}, "-I$$Config{archlib}/CORE")'` \
cod-tools-3.1.0+dfsg/.pc/spglib.diff/src/lib/perl5/COD/SPGLib/Makelocal-SWIG-module-39- $+