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/ ___\_` __ \__ \ | | \/ __ | | \\_ __\
/ /_/ > | \// __ \| | / /_/ | | || |
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grep rough audit - static analysis tool
v2.8 written by @Wireghoul
=================================[justanotherhacker.com]===
centrifuge-1.0.3/centrifuge-460- push @to_delete, $ofn;
centrifuge-1.0.3/centrifuge:461: system("$build_bin $ofn $ofn") == 0 ||
centrifuge-1.0.3/centrifuge-462- Fail("centrifuge-build returned non-0 exit level.\n");
##############################################
centrifuge-1.0.3/centrifuge-688-} else {
centrifuge-1.0.3/centrifuge:689: $ret = system($cmd);
centrifuge-1.0.3/centrifuge-690-}
##############################################
centrifuge-1.0.3/centrifuge-BuildSharedSequence.pl-241- print "nucmer --maxmatch --coords -l $kmerSize -g $nucmerG -b $nucmerB -c $nucmerC -p nucmer_$prefix $fileNameA $fileNameB\n" ;
centrifuge-1.0.3/centrifuge-BuildSharedSequence.pl:242: my $nucRet = system("nucmer --maxmatch --coords -l $kmerSize -g $nucmerG -b $nucmerB -c $nucmerC -p nucmer_$prefix $fileNameA $fileNameB") ; # if the call to nucmer failed, we just not compress at all.
centrifuge-1.0.3/centrifuge-BuildSharedSequence.pl-243-
##############################################
centrifuge-1.0.3/centrifuge-compress.pl-562-#print $i, "\n" ;
centrifuge-1.0.3/centrifuge-compress.pl:563:#`cat $i >> tmp_output.fa` ;
centrifuge-1.0.3/centrifuge-compress.pl-564- print "Unused file: $i\n" ;
##############################################
centrifuge-1.0.3/centrifuge-download-38-
centrifuge-1.0.3/centrifuge-download:39: NAME=`basename $FILEPATH .gz`
centrifuge-1.0.3/centrifuge-download-40-
##############################################
centrifuge-1.0.3/centrifuge-download-104- #echo -n "Creating $1 ... " >&2
centrifuge-1.0.3/centrifuge-download:105: if [[ -d $1 && ! -n `find $1 -prune -empty -type d` ]]; then
centrifuge-1.0.3/centrifuge-download-106- echo "Directory $1 exists. Continuing" >&2
##############################################
centrifuge-1.0.3/centrifuge-download-142-USAGE="
centrifuge-1.0.3/centrifuge-download:143:`basename $0` [<options>] <database>
centrifuge-1.0.3/centrifuge-download-144-
##############################################
centrifuge-1.0.3/centrifuge-download-289- if [[ -f .listing ]]; then
centrifuge-1.0.3/centrifuge-download:290: if [[ ! `grep "^d.* $DOMAIN" .listing` ]]; then
centrifuge-1.0.3/centrifuge-download-291- c_echo "$DOMAIN is not a valid domain - use one of the following:" >&2
##############################################
centrifuge-1.0.3/centrifuge-download-322-
centrifuge-1.0.3/centrifuge-download:323: N_EXPECTED=`cat "$ASSEMBLY_SUMMARY_FILE" | wc -l`
centrifuge-1.0.3/centrifuge-download-324- [[ $N_EXPECTED -gt 0 ]] || { echo "Domain $DOMAIN has no genomes with specified filter." >&2; exit 1; }
##############################################
centrifuge-1.0.3/centrifuge-download-340-
centrifuge-1.0.3/centrifuge-download:341: if [[ "$DOWNLOAD_RNA" == "1" && ! `echo $DOMAIN | egrep 'bacteria|viral|archaea'` ]]; then
centrifuge-1.0.3/centrifuge-download-342- echo "Downloadinging rna sequence files" >&2
##############################################
centrifuge-1.0.3/centrifuge.xcodeproj/project.pbxproj-637- "BUILD_TIME=\"\\\"`date`\\\"\"",
centrifuge-1.0.3/centrifuge.xcodeproj/project.pbxproj:638: "COMPILER_VERSION=\"\\\"`$(CXX) -v 2>&1 | tail -1`\\\"\"",
centrifuge-1.0.3/centrifuge.xcodeproj/project.pbxproj-639- "COMPILER_OPTIONS=\"\\\"test\\\"\"",
##############################################
centrifuge-1.0.3/centrifuge.xcodeproj/project.pbxproj-691- "BUILD_TIME=\"\\\"`date`\\\"\"",
centrifuge-1.0.3/centrifuge.xcodeproj/project.pbxproj:692: "COMPILER_VERSION=\"\\\"`$(CXX) -v 2>&1 | tail -1`\\\"\"",
centrifuge-1.0.3/centrifuge.xcodeproj/project.pbxproj-693- "COMPILER_OPTIONS=\"\\\"test\\\"\"",
##############################################
centrifuge-1.0.3/fast_mutex.h-153- #if defined(__GNUC__) && (defined(__i386__) || defined(__x86_64__))
centrifuge-1.0.3/fast_mutex.h:154: asm volatile (
centrifuge-1.0.3/fast_mutex.h-155- "movl $1,%%eax\n\t"
##############################################
centrifuge-1.0.3/fast_mutex.h-163- int *ptrLock = &mLock;
centrifuge-1.0.3/fast_mutex.h:164: __asm {
centrifuge-1.0.3/fast_mutex.h-165- mov eax,1
##############################################
centrifuge-1.0.3/fast_mutex.h-171- int newLock = 1;
centrifuge-1.0.3/fast_mutex.h:172: asm volatile (
centrifuge-1.0.3/fast_mutex.h-173- "\n1:\n\t"
##############################################
centrifuge-1.0.3/fast_mutex.h-202- #if defined(__GNUC__) && (defined(__i386__) || defined(__x86_64__))
centrifuge-1.0.3/fast_mutex.h:203: asm volatile (
centrifuge-1.0.3/fast_mutex.h-204- "movl $0,%%eax\n\t"
##############################################
centrifuge-1.0.3/fast_mutex.h-211- int *ptrLock = &mLock;
centrifuge-1.0.3/fast_mutex.h:212: __asm {
centrifuge-1.0.3/fast_mutex.h-213- mov eax,0
##############################################
centrifuge-1.0.3/fast_mutex.h-217- #elif defined(__GNUC__) && (defined(__ppc__))
centrifuge-1.0.3/fast_mutex.h:218: asm volatile (
centrifuge-1.0.3/fast_mutex.h-219- "sync\n\t" // Replace with lwsync where possible?
##############################################
centrifuge-1.0.3/functions.sh-4- echo -n "Creating $1 ... " >&2
centrifuge-1.0.3/functions.sh:5: if [[ -d $1 && ! -n `find $1 -prune -empty -type d` ]]; then
centrifuge-1.0.3/functions.sh-6- echo "Directory exists - skipping it!" >&2
##############################################
centrifuge-1.0.3/functions.sh-16- echo -n "Creating $1 ... " >&2
centrifuge-1.0.3/functions.sh:17: if [[ -d $1 && ! -n `find $1 -prune -empty -type d` ]]; then
centrifuge-1.0.3/functions.sh-18- echo "Directory exists already! Continuing" >&2
##############################################
centrifuge-1.0.3/functions.sh-30-function validate_url(){
centrifuge-1.0.3/functions.sh:31: if [[ `wget --reject="index.html*" -S --spider $1 2>&1 | egrep 'HTTP/1.1 200 OK|File .* exists.'` ]]; then echo "true"; fi
centrifuge-1.0.3/functions.sh-32-}
##############################################
centrifuge-1.0.3/third_party/cpuid.h-84-#else
centrifuge-1.0.3/third_party/cpuid.h:85:/* Host GCCs older than 3.0 weren't supporting Intel asm syntax
centrifuge-1.0.3/third_party/cpuid.h-86- nor alternatives in i386 code. */
##############################################
centrifuge-1.0.3/third_party/cpuid.h-140-#else
centrifuge-1.0.3/third_party/cpuid.h:141:/* Host GCCs older than 3.0 weren't supporting Intel asm syntax
centrifuge-1.0.3/third_party/cpuid.h-142- nor alternatives in i386 code. */
##############################################
centrifuge-1.0.3/debian/bin/centrifuge-2-
centrifuge-1.0.3/debian/bin/centrifuge:3:exe=`basename $0`
centrifuge-1.0.3/debian/bin/centrifuge-4-
##############################################
centrifuge-1.0.3/debian/bin/centrifuge-build-2-
centrifuge-1.0.3/debian/bin/centrifuge-build:3:exe=`basename $0`
centrifuge-1.0.3/debian/bin/centrifuge-build-4-
##############################################
centrifuge-1.0.3/debian/bin/centrifuge-compress-2-
centrifuge-1.0.3/debian/bin/centrifuge-compress:3:exe=`basename $0`
centrifuge-1.0.3/debian/bin/centrifuge-compress-4-
##############################################
centrifuge-1.0.3/debian/bin/centrifuge-download-2-
centrifuge-1.0.3/debian/bin/centrifuge-download:3:exe=`basename $0`
centrifuge-1.0.3/debian/bin/centrifuge-download-4-
##############################################
centrifuge-1.0.3/debian/bin/centrifuge-inspect-2-
centrifuge-1.0.3/debian/bin/centrifuge-inspect:3:exe=`basename $0`
centrifuge-1.0.3/debian/bin/centrifuge-inspect-4-
##############################################
centrifuge-1.0.3/debian/createmanpages-4-
centrifuge-1.0.3/debian/createmanpages:5:VERSION=`dpkg-parsechangelog | awk '/^Version:/ {print $2}' | sed -e 's/^[0-9]*://' -e 's/-.*//' -e 's/[+~]dfsg$//'`
centrifuge-1.0.3/debian/createmanpages-6-
##############################################
centrifuge-1.0.3/.pc/fix_auto_ptr_usage_in_gcc-7.patch/bt2_idx.h-491- int64_t count;
centrifuge-1.0.3/.pc/fix_auto_ptr_usage_in_gcc-7.patch/bt2_idx.h:492: asm ("popcntq %[x],%[count]\n": [count] "=&r" (count): [x] "r" (x));
centrifuge-1.0.3/.pc/fix_auto_ptr_usage_in_gcc-7.patch/bt2_idx.h-493- return (int)count;
##############################################
centrifuge-1.0.3/.pc/0003-Fix-make-install-DESTDIR.patch/Makefile-252- -DBUILD_TIME="\"`date`\"" \
centrifuge-1.0.3/.pc/0003-Fix-make-install-DESTDIR.patch/Makefile:253: -DCOMPILER_VERSION="\"`$(CXX) -v 2>&1 | tail -1`\"" \
centrifuge-1.0.3/.pc/0003-Fix-make-install-DESTDIR.patch/Makefile-254- $(FILE_FLAGS) \
##############################################
centrifuge-1.0.3/.pc/hardening.patch/Makefile-252- -DBUILD_TIME="\"`date`\"" \
centrifuge-1.0.3/.pc/hardening.patch/Makefile:253: -DCOMPILER_VERSION="\"`$(CXX) -v 2>&1 | tail -1`\"" \
centrifuge-1.0.3/.pc/hardening.patch/Makefile-254- $(FILE_FLAGS) \
##############################################
centrifuge-1.0.3/.pc/no_msse2.patch/Makefile-252- -DBUILD_TIME="\"`date`\"" \
centrifuge-1.0.3/.pc/no_msse2.patch/Makefile:253: -DCOMPILER_VERSION="\"`$(CXX) -v 2>&1 | tail -1`\"" \
centrifuge-1.0.3/.pc/no_msse2.patch/Makefile-254- $(FILE_FLAGS) \
##############################################
centrifuge-1.0.3/.pc/2to3.patch/Makefile-252- -DBUILD_TIME="\"`date`\"" \
centrifuge-1.0.3/.pc/2to3.patch/Makefile:253: -DCOMPILER_VERSION="\"`$(CXX) -v 2>&1 | tail -1`\"" \
centrifuge-1.0.3/.pc/2to3.patch/Makefile-254- $(FILE_FLAGS) \
##############################################
centrifuge-1.0.3/bt2_idx.h-491- int64_t count;
centrifuge-1.0.3/bt2_idx.h:492: asm ("popcntq %[x],%[count]\n": [count] "=&r" (count): [x] "r" (x));
centrifuge-1.0.3/bt2_idx.h-493- return (int)count;
##############################################
centrifuge-1.0.3/Makefile-252- -DBUILD_TIME="\"`date`\"" \
centrifuge-1.0.3/Makefile:253: -DCOMPILER_VERSION="\"`$(CXX) -v 2>&1 | tail -1`\"" \
centrifuge-1.0.3/Makefile-254- $(FILE_FLAGS) \