Attachment 148035 Details for Bug 190854 – New shar with amq -w patch

New shar with amq -w patch

ncbi-blast-shar.txt (text/plain), 247.41 KB, created by Jason W. Bacon on 2014-10-06 16:42:25 UTC

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Creator: Jason W. Bacon

Created: 2014-10-06 16:42:25 UTC

Size: 247.41 KB

patch

obsolete

># This is a shell archive.  Save it in a file, remove anything before
># this line, and then unpack it by entering "sh file".  Note, it may
># create directories; files and directories will be owned by you and
># have default permissions.
>#
># This archive contains:
>#
>#	ncbi-blast
>#	ncbi-blast/files
>#	ncbi-blast/files/patch-src-build-system-configure
>#	ncbi-blast/distinfo
>#	ncbi-blast/pkg-descr
>#	ncbi-blast/log
>#	ncbi-blast/pkg-plist
>#	ncbi-blast/Makefile
>#	ncbi-blast/submitted
>#	ncbi-blast/todo
>#
>echo c - ncbi-blast
>mkdir -p ncbi-blast > /dev/null 2>&1
>echo c - ncbi-blast/files
>mkdir -p ncbi-blast/files > /dev/null 2>&1
>echo x - ncbi-blast/files/patch-src-build-system-configure
>sed 's/^X//' >ncbi-blast/files/patch-src-build-system-configure << '5d793d1e2fa7670c30fc7566e5101058'
>X--- src/build-system/configure.orig	2013-11-25 13:58:10.000000000 -0600
>X+++ src/build-system/configure	2014-10-06 11:34:17.000000000 -0500
>X@@ -849,8 +849,6 @@
>X   --libdir=DIR           object code libraries [EPREFIX/lib]
>X   --includedir=DIR       C header files [PREFIX/include]
>X   --oldincludedir=DIR    C header files for non-gcc [/usr/include]
>X-  --infodir=DIR          info documentation [PREFIX/info]
>X-  --mandir=DIR           man documentation [PREFIX/man]
>X _ACEOF
>X 
>X   cat <<\_ACEOF
>X@@ -5109,7 +5107,7 @@
>X echo "$as_me: error: Do not know how to build MT-safe with compiler $CXX $compiler_ver" >&2;}
>X    { (exit 1); exit 1; }; } ;;
>X    esac
>X-   CPPFLAGS="$CPPFLAGS -D_MT -D_REENTRANT -D_THREAD_SAFE"
>X+   CPPFLAGS="$CPPFLAGS -D_MT -D_REENTRANT -D_THREAD_SAFE -D__RUNETYPE_INTERNAL"
>X    case "$host_os:$compiler" in
>X      solaris2.10:GCC ) : ${THREAD_LIBS:="-lposix4"} ;;
>X      solaris*        ) : ${THREAD_LIBS:="-lpthread -lposix4"} ;;
>X@@ -8487,11 +8485,11 @@
>X if test "${ncbi_cv_prog_amq_w+set}" = set; then
>X   echo $ECHO_N "(cached) $ECHO_C" >&6
>X else
>X-  if $AMQ -w >/dev/null 2>&1; then
>X-          ncbi_cv_prog_amq_w=yes
>X-       else
>X+#  if $AMQ -w >/dev/null 2>&1; then
>X+#          ncbi_cv_prog_amq_w=yes
>X+#       else
>X           ncbi_cv_prog_amq_w=no
>X-       fi
>X+#       fi
>X fi
>X echo "$as_me:$LINENO: result: $ncbi_cv_prog_amq_w" >&5
>X echo "${ECHO_T}$ncbi_cv_prog_amq_w" >&6
>5d793d1e2fa7670c30fc7566e5101058
>echo x - ncbi-blast/distinfo
>sed 's/^X//' >ncbi-blast/distinfo << '98313477de6e1827265d4b7a1ae8f2d5'
>XSHA256 (ncbi-blast-2.2.29+-src.tar.gz) = 520a3d2212679452e273f04fb095550c64abbb7a94dcfc2c6752b8277b62f346
>XSIZE (ncbi-blast-2.2.29+-src.tar.gz) = 15574532
>98313477de6e1827265d4b7a1ae8f2d5
>echo x - ncbi-blast/pkg-descr
>sed 's/^X//' >ncbi-blast/pkg-descr << 'b1c6e313f315da0f10c11204e197b513'
>XThe Basic Local Alignment Search Tool (BLAST) finds regions of local
>Xsimilarity between sequences. The program compares nucleotide or protein
>Xsequences to sequence databases and calculates the statistical significance of
>Xmatches. BLAST can be used to infer functional and evolutionary relationships
>Xbetween sequences as well as help identify members of gene families.
>X
>XWWW: http://blast.ncbi.nlm.nih.gov
>b1c6e313f315da0f10c11204e197b513
>echo x - ncbi-blast/log
>sed 's/^X//' >ncbi-blast/log << '0c00fb02b2b4ed0c8646e12999752444'
>X===>  Cleaning for ncbiblast-2.2.29
>X===>  License Public_domain accepted by the user
>X===>   ncbiblast-2.2.29 depends on file: /usr/local/sbin/pkg - found
>X===> Fetching all distfiles required by ncbiblast-2.2.29 for building
>X===>  Extracting for ncbiblast-2.2.29
>X=> SHA256 Checksum OK for ncbi-blast-2.2.29+-src.tar.gz.
>X===>  Patching for ncbiblast-2.2.29
>X===>  Applying FreeBSD patches for ncbiblast-2.2.29
>X/usr/bin/sed -i.bak  -e 's|@prefix@|/usr/wip/biology/ncbi-blast/work/stage@prefix@|g'  /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/src/build-system/Makefile.in.top
>X===>   ncbiblast-2.2.29 depends on file: /usr/local/bin/python2.7 - found
>X===>   ncbiblast-2.2.29 depends on executable: gcc48 - found
>X===>   ncbiblast-2.2.29 depends on file: /usr/local/bin/as - found
>X===>   ncbiblast-2.2.29 depends on shared library: libpcre.so - found (/usr/local/lib/libpcre.so.3)
>X===>   ncbiblast-2.2.29 depends on shared library: libbz2.so - found (/usr/lib/libbz2.so.4)
>X===>  Configuring for ncbiblast-2.2.29
>Xconfigure: loading site script /usr/ports/Templates/config.site
>Xconfigure: creating cache config.cache
>Xchecking build system type... amd64-portbld-freebsd9.2
>Xchecking host system type... amd64-portbld-freebsd9.2
>Xchecking for a BSD-compatible install... /usr/bin/install -c -o root -g wheel
>Xchecking for gcc... gcc48
>Xchecking for C compiler default output file name... a.out
>Xchecking whether the C compiler works... yes
>Xchecking whether we are cross compiling... no
>Xchecking for suffix of executables... 
>Xchecking for suffix of object files... o
>Xchecking whether we are using the GNU C compiler... yes
>Xchecking whether gcc48 accepts -g... yes
>Xchecking for gcc48 option to accept ANSI C... none needed
>Xchecking whether we are using the GNU C++ compiler... yes
>Xchecking whether g++48 accepts -g... yes
>Xadjusted C   compiler: /usr/local/bin/gcc48 
>Xadjusted C++ compiler: /usr/local/bin/g++48 
>XUsing built-in specs.
>XCOLLECT_GCC=/usr/local/bin/gcc48
>XCOLLECT_LTO_WRAPPER=/usr/local/libexec/gcc48/gcc/x86_64-portbld-freebsd9.1/4.8.3/lto-wrapper
>XTarget: x86_64-portbld-freebsd9.1
>XConfigured with: ./../gcc-4.8.3/configure --disable-bootstrap --disable-nls --enable-gnu-indirect-function --libdir=/usr/local/lib/gcc48 --libexecdir=/usr/local/libexec/gcc48 --program-suffix=48 --with-as=/usr/local/bin/as --with-gmp=/usr/local --with-gxx-include-dir=/usr/local/lib/gcc48/include/c++/ --with-ld=/usr/local/bin/ld --with-libiconv-prefix=/usr/local --with-pkgversion='FreeBSD Ports Collection' --with-system-zlib --with-ecj-jar=/usr/local/share/java/ecj-4.5.jar --enable-languages=c,c++,objc,fortran,java --prefix=/usr/local --mandir=/usr/local/man --infodir=/usr/local/info/gcc48 --build=x86_64-portbld-freebsd9.1
>XThread model: posix
>Xgcc version 4.8.3 (FreeBSD Ports Collection) 
>Xchecking whether /usr/local/bin/gcc48  has an option to export all symbols... -rdynamic
>Xchecking whether /usr/local/bin/gcc48  supports -Wl,--{en,dis}able-new-dtags... yes
>Xchecking how to enable C++ '11 features in /usr/local/bin/g++48 ... -std=gnu++11
>Xchecking how to enable C '11 or at least '99 features in /usr/local/bin/gcc48 ... -std=gnu11 -fgnu89-inline
>Xchecking whether ln -s works... yes
>Xchecking for ranlib... /usr/local/bin/ranlib
>Xchecking for ar... ar cr
>Xchecking ranlib's effectiveness... neutral
>Xchecking for strip... strip
>Xchecking whether strip loses runtime type information... no
>Xchecking for ccache... no
>Xchecking for tail... /usr/bin/tail
>Xchecking whether /usr/bin/tail accepts modern syntax (-n N)... yes
>Xchecking for touch... /usr/bin/touch
>Xchecking for grep... (cached) /usr/bin/grep
>Xchecking for egrep... grep -E
>Xchecking how to run grep -E quietly... grep -E -q
>Xchecking for valgrind... no
>Xchecking for ldd... /usr/bin/ldd
>Xchecking whether /usr/bin/ldd accepts -r... no
>Xchecking how to run the C++ preprocessor... /usr/local/bin/g++48  -std=gnu++11 -E
>Xchecking for ANSI C header files... (cached) yes
>Xchecking for sys/types.h... (cached) yes
>Xchecking for sys/stat.h... (cached) yes
>Xchecking for stdlib.h... (cached) yes
>Xchecking for string.h... (cached) yes
>Xchecking for memory.h... (cached) yes
>Xchecking for strings.h... (cached) yes
>Xchecking for inttypes.h... (cached) yes
>Xchecking for stdint.h... (cached) yes
>Xchecking for unistd.h... (cached) yes
>Xchecking for size_t... (cached) yes
>Xchecking for size_t... (cached) yes
>Xchecking size of size_t... 8
>Xchecking for amq... /usr/sbin/amq
>Xchecking whether /usr/sbin/amq -w works... no
>Xchecking whether /usr/local/bin/gcc48  -std=gnu11 -fgnu89-inline supports -Wl,--no-allow-shlib-undefined... no
>Xchecking how to run the C preprocessor... cpp48
>Xchecking whether cross-directory hard links work... yes
>Xchecking iostream usability... yes
>Xchecking iostream presence... yes
>Xchecking for iostream... yes
>Xchecking iostream.h usability... no
>Xchecking iostream.h presence... no
>Xchecking for iostream.h... no
>Xchecking fstream usability... yes
>Xchecking fstream presence... yes
>Xchecking for fstream... yes
>Xchecking fstream.h usability... no
>Xchecking fstream.h presence... no
>Xchecking for fstream.h... no
>Xchecking strstream usability... yes
>Xchecking strstream presence... yes
>Xchecking for strstream... yes
>Xchecking strstream.h usability... no
>Xchecking strstream.h presence... no
>Xchecking for strstream.h... no
>Xchecking strstrea.h usability... no
>Xchecking strstrea.h presence... no
>Xchecking for strstrea.h... no
>Xchecking for inttypes.h... (cached) yes
>Xchecking limits usability... yes
>Xchecking limits presence... yes
>Xchecking for limits... yes
>Xchecking for unistd.h... (cached) yes
>Xchecking windows.h usability... no
>Xchecking windows.h presence... no
>Xchecking for windows.h... no
>Xchecking for wstring... yes
>Xchecking for socklen_t... (cached) yes
>Xchecking atomic.h usability... no
>Xchecking atomic.h presence... no
>Xchecking for atomic.h... no
>Xchecking for dlfcn.h... (cached) yes
>Xchecking ieeefp.h usability... yes
>Xchecking ieeefp.h presence... yes
>Xchecking for ieeefp.h... yes
>Xchecking for poll.h... (cached) yes
>Xchecking sys/epoll.h usability... no
>Xchecking sys/epoll.h presence... no
>Xchecking for sys/epoll.h... no
>Xchecking for sys/mount.h... (cached) yes
>Xchecking sys/sockio.h usability... yes
>Xchecking sys/sockio.h presence... yes
>Xchecking for sys/sockio.h... yes
>Xchecking for sys/statvfs.h... (cached) yes
>Xchecking sys/sysinfo.h usability... yes
>Xchecking sys/sysinfo.h presence... yes
>Xchecking for sys/sysinfo.h... yes
>Xchecking sys/vfs.h usability... no
>Xchecking sys/vfs.h presence... no
>Xchecking for sys/vfs.h... no
>Xchecking for arpa/inet.h... (cached) yes
>Xchecking for errno.h... (cached) yes
>Xchecking for malloc.h... (cached) no
>Xchecking for netdb.h... (cached) yes
>Xchecking for netinet/in.h... (cached) yes
>Xchecking netinet/tcp.h usability... yes
>Xchecking netinet/tcp.h presence... yes
>Xchecking for netinet/tcp.h... yes
>Xchecking for paths.h... (cached) yes
>Xchecking for signal.h... (cached) yes
>Xchecking for sys/ioctl.h... (cached) yes
>Xchecking for sys/select.h... (cached) yes
>Xchecking for sys/socket.h... (cached) yes
>Xchecking for sys/time.h... (cached) yes
>Xchecking for wchar.h... (cached) yes
>Xchecking whether time.h and sys/time.h may both be included... yes
>Xchecking for gethostbyname_r... 6
>Xchecking for gethostbyaddr_r... 8
>Xchecking for getservbyname_r... 6
>Xchecking for getpwuid_r... 5
>Xchecking for getlogin_r... yes
>Xchecking for localtime_r... yes
>Xchecking for pthread_setconcurrency... yes
>Xchecking for pthread_atfork... yes
>Xchecking return type of localtime_r... struct
>Xchecking whether pthread mutexes are available... yes
>Xchecking for vprintf... (cached) yes
>Xchecking for _doprnt... no
>Xchecking for euidaccess... no
>Xchecking for atoll... yes
>Xchecking for basename... yes
>Xchecking for lchown... yes
>Xchecking for fseeko... yes
>Xchecking for getgrouplist... (cached) yes
>Xchecking for getpagesize... (cached) yes
>Xchecking for getpass... yes
>Xchecking for getpassphrase... no
>Xchecking for getpwuid... yes
>Xchecking for getrusage... (cached) yes
>Xchecking for gettimeofday... (cached) yes
>Xchecking for getuid... (cached) yes
>Xchecking for memrchr... yes
>Xchecking for readpassphrase... (cached) yes
>Xchecking for readv... yes
>Xchecking for usleep... (cached) yes
>Xchecking for asprintf... (cached) yes
>Xchecking for vasprintf... (cached) yes
>Xchecking for vsnprintf... (cached) yes
>Xchecking for select... (cached) yes
>Xchecking for statfs... (cached) yes
>Xchecking for statvfs... (cached) yes
>Xchecking for strcasecmp... (cached) yes
>Xchecking for strlcat... (cached) yes
>Xchecking for strlcpy... (cached) yes
>Xchecking for strdup... (cached) yes
>Xchecking for strndup... (cached) yes
>Xchecking for strtok_r... yes
>Xchecking for sysmp... no
>Xchecking for timegm... yes
>Xchecking for utimes... (cached) yes
>Xchecking for lutimes... yes
>Xchecking for writev... yes
>Xchecking return type of signal handlers... void
>Xchecking whether select updates the timeout when interrupted... no
>Xchecking whether strcasecmp treats letters as lowercase... yes
>Xchecking for Linux-like sysinfo with 1 arg... yes
>Xchecking for getloadavg... yes
>Xchecking for readdir_r... 3
>Xchecking for an ANSI C-conforming const... yes
>Xchecking whether byte ordering is bigendian... no
>Xchecking whether char is unsigned... no
>Xchecking for char... (cached) yes
>Xchecking size of char... 1
>Xchecking for double... yes
>Xchecking size of double... 8
>Xchecking for float... yes
>Xchecking size of float... 4
>Xchecking for int... (cached) yes
>Xchecking size of int... 4
>Xchecking for long... (cached) yes
>Xchecking size of long... 8
>Xchecking for long double... (cached) yes
>Xchecking size of long double... 16
>Xchecking for long long... (cached) yes
>Xchecking size of long long... 8
>Xchecking for short... (cached) yes
>Xchecking size of short... 2
>Xchecking for void*... yes
>Xchecking size of void*... 8
>Xchecking for __int64... no
>Xchecking size of __int64... 0
>Xchecking for intptr_t... yes
>Xchecking for uintptr_t... (cached) yes
>Xchecking for struct sockaddr_in.sin_len... yes
>Xchecking for struct tm.tm_zone... yes
>Xchecking for struct tm.__tm_zone... no
>Xchecking whether function prototypes can use throw(...)... yes
>Xchecking for obsolete string::compare() syntax... no
>Xchecking whether the auto_ptr template class works... yes
>Xchecking for min/max templates... yes
>Xchecking whether new C++ streams have ios_base::... yes
>Xchecking for ios(_base)::register_callback... yes
>Xchecking for std::char_traits::... yes
>Xchecking for SysV semaphores... yes
>Xchecking for union semun... yes
>Xchecking which way the stack grows... down
>Xchecking whether the preprocessor supports C99-style variadic macros... yes
>Xchecking whether the preprocessor supports GNU-style variadic macros... yes
>Xchecking syntax for marking deprecated functions... __attribute__((__deprecated__))
>Xchecking how to force inlining... inline __attribute__((always_inline))
>Xchecking whether the C compiler supports __attribute__((destructor))... yes
>Xchecking whether /usr/local/bin/gcc48  -std=gnu11 -fgnu89-inline supports __attribute__((visibility("default")))... (cached) unnecessary
>Xchecking whether the C compiler supports C99 restrict... __restrict__
>Xchecking whether the C++ compiler supports C99 restrict... __restrict__
>Xchecking syntax for marking functions that never return... __attribute__((__noreturn__))
>Xchecking syntax for declaring thread-local variables... __thread
>Xchecking whether FIONBIO requires BSD_COMP to be defined... no
>Xchecking whether INADDR_NONE is defined... yes
>Xchecking whether unaligned reads are permissible... yes
>Xchecking whether in-house NCBI resources are available... no
>Xchecking for gethostbyname in -lnsl... no
>Xchecking for connect in -lsocket... no
>Xchecking for res_search in -lresolv... no
>Xchecking for inet_ntoa_r... yes
>Xchecking for getaddrinfo... (cached) yes
>Xchecking for getnameinfo... (cached) yes
>Xchecking for freehostent... yes
>Xchecking for gethostent_r... yes
>Xchecking for getipnodebyaddr... yes
>Xchecking for getipnodebyname... yes
>Xchecking for inet_ntop... (cached) yes
>Xchecking for erf... yes
>Xchecking for library containing kstat_open... no
>Xchecking for library containing rstat... -lrpcsvc
>Xchecking for library containing setkey... none required
>Xchecking for library containing dlopen... none required
>Xchecking for library containing uuid_generate... no
>Xchecking for library containing fuse_loop... no
>Xchecking for library containing clock_gettime... none required
>Xchecking for library containing cplus_demangle... no
>Xchecking for nanosleep... yes
>Xchecking for sched_yield... (cached) yes
>Xchecking for library containing iconv... -liconv
>Xchecking for iconv declaration... 
>X       extern size_t iconv (iconv_t cd, const char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft);
>Xchecking for libz... yes
>Xchecking for libbz2... yes
>Xchecking for liblzo2... yes
>Xchecking for libpcre in /usr/local... yes
>Xchecking for libgcrypt-config... /usr/local/bin/libgcrypt-config
>Xchecking for libgcrypt in /usr/local... yes
>Xchecking for libgnutls-config... no
>Xchecking for libgnutls... yes
>Xchecking for libssl... yes
>Xchecking for krb5-config... /usr/bin/krb5-config
>Xchecking for libgssapi_krb5 in /usr... yes
>Xchecking for libcurl... yes
>Xchecking for reentrant Sybase libraries... no
>Xchecking for Sybase... no
>Xchecking for FreeTDS... no
>Xchecking for mysql_config... no
>Xchecking for Berkeley DB libraries... no
>Xchecking for python... /usr/local/bin/python2.7
>Xchecking for usable Python 2.7 libraries... yes
>Xchecking for python2.3... no
>Xchecking for python2.4... no
>Xchecking for python2.5... no
>Xchecking for perl... /usr/local/bin/perl
>Xchecking for usable Perl libraries... yes
>Xchecking for the NCBI C toolkit... no
>Xchecking for X... libraries , headers 
>Xchecking for gethostbyname... (cached) yes
>Xchecking for connect... yes
>Xchecking for remove... yes
>Xchecking for shmat... yes
>Xchecking for IceConnectionNumber in -lICE... yes
>Xchecking for XextCreateExtension in -lXext... yes
>Xchecking for XtMainLoop in -lXt... yes
>Xchecking for XmuMakeAtom in -lXmu... yes
>Xchecking for OpenGL... yes
>Xchecking for OSMesaCreateContext in -lOSMesa... no
>Xchecking for glutInit in -lglut... yes
>Xchecking for library containing glewGetExtension... no
>Xchecking for wx-config... no
>Xchecking for wxWidgets... no
>Xchecking for FastCGI libraries... no
>Xchecking for FCGX_Accept_r... no
>Xchecking for NCBI SSS directories in /sss/BUILD... no
>Xchecking for SP directories... no
>Xchecking for ORBacus... no
>Xchecking for ICU in /usr/local... yes
>Xchecking for libexpat... yes
>Xchecking for libsablot... no
>Xchecking for libxml2... no
>Xchecking for libxslt... no
>Xchecking for xsltproc... /usr/local/bin/xsltproc
>Xchecking for libexslt... no
>Xchecking for Xerces-C++... no
>Xchecking for Xalan-C++... no
>Xchecking for Zorba... no
>Xchecking for libsqlite3... yes
>Xchecking sqlite3async.h usability... no
>Xchecking sqlite3async.h presence... no
>Xchecking for sqlite3async.h... no
>Xchecking for sqlite3_unlock_notify... yes
>Xchecking for liboechem... no
>Xchecking for libdrmaa... no
>Xchecking for libmuparser... no
>Xchecking for libhdf5_cpp... yes
>Xchecking for libjpeg... yes
>Xchecking for libpng... yes
>Xchecking for libtiff... yes
>Xchecking for libungif... no
>Xchecking for libgif... yes
>Xchecking for libXpm... yes
>Xchecking for freetype-config... /usr/local/bin/freetype-config
>Xchecking whether FREETYPE_INCLUDE needs doctoring... no
>Xchecking whether FreeType works... yes
>Xchecking for libftgl... yes
>Xchecking for libmagic... yes
>Xchecking for libmimetic... no
>Xchecking for soapcpp2... no
>Xchecking for wsdl2h... no
>Xchecking for libgsoapssl++... no
>Xchecking for libmongoclient... no
>Xconfigure: looking for configurables below /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++...
>Xconfigure: ...done
>Xupdating cache config.cache
>Xconfigure: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/status/config.status
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/dbapi/cache/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/dbapi/driver/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/dbapi/driver/odbc/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/dbapi/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/serial/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/serial/datatool/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/xregexp/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/tables/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/sequtil/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/compress/api/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/compress/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/compress/bzip2/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/compress/zlib/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/creaders/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/regexp/Makefile
>Xconfig.status: creating /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/util/bitset/Makefile
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>X  disabled: UUID FUSE LocalZ LocalBZ2 LocalPCRE Sybase DBLib FreeTDS MySQL BerkeleyDB BerkeleyDB++ ODBC PYTHON23 PYTHON24 PYTHON25 Boost.Filesystem Boost.Regex Boost.Spirit Boost.System Boost.Test Boost.Test.Included Boost.Threads C-Toolkit MESA GLEW wxWidgets wx2.8 Fast-CGI LocalSSS LocalMSGMAIL2 SSSUTILS LocalNCBILS NCBILS2 SSSDB SP ORBacus SABLOT LIBXML LIBXSLT LIBEXSLT Xerces Xalan Zorba SQLITE3ASYNC OECHEM SGE MUPARSER UNGIF MIMETIC GSOAP MONGODB
>XPROJECTS:
>X  enabled:  cgi local_lbsm connext ncbi_crypt serial objects dbapi app algo 
>X  disabled: bdb ctools gui gbench
>X
>XTools / flags / paths:  /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build/Makefile.mk
>XConfiguration  header:  /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/inc/ncbiconf_unix.h
>X
>XTo build everything:  cd /usr/wip/biology/ncbi-blast/work/ncbi-blast-2.2.29+-src/c++/ReleaseMT/build && make all_r
>Xor simply run make in the current directory
>X
>X
>X******* CONFIGURATION SUCCESSFUL *******
>0c00fb02b2b4ed0c8646e12999752444
>echo x - ncbi-blast/pkg-plist
>sed 's/^X//' >ncbi-blast/pkg-plist << '7ec228fb889d4ca1983a930120902723'
>Xbin/blast_formatter
>Xbin/blastdb_aliastool
>Xbin/blastdbcheck
>Xbin/blastdbcmd
>Xbin/blastdbcp
>Xbin/blastn
>Xbin/blastp
>Xbin/blastx
>Xbin/convert2blastmask
>Xbin/datatool
>Xbin/deltablast
>Xbin/dustmasker
>Xbin/gene_info_reader
>Xbin/legacy_blast.pl
>Xbin/makeblastdb
>Xbin/makembindex
>Xbin/makeprofiledb
>Xbin/project_tree_builder
>Xbin/psiblast
>Xbin/rpsblast
>Xbin/rpstblastn
>Xbin/seedtop
>Xbin/segmasker
>Xbin/seqdb_demo
>Xbin/seqdb_perf
>Xbin/tblastn
>Xbin/tblastx
>Xbin/update_blastdb.pl
>Xbin/windowmasker
>Xbin/windowmasker_2.2.22_adapter.py
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>Xinclude/ncbi-tools++/algo/blast/api/blast_advprot_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_aux.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_dbindex.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_exception.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_mtlock.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_nucl_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_options_builder.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_options_handle.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_prot_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_results.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_rps_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blast_seqinfosrc.hpp
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>Xinclude/ncbi-tools++/algo/blast/api/blast_types.hpp
>Xinclude/ncbi-tools++/algo/blast/api/blastx_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/cdd_pssm_input.hpp
>Xinclude/ncbi-tools++/algo/blast/api/deltablast.hpp
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>Xinclude/ncbi-tools++/algo/blast/api/disc_nucl_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/effsearchspace_calc.hpp
>Xinclude/ncbi-tools++/algo/blast/api/hspstream_queue.hpp
>Xinclude/ncbi-tools++/algo/blast/api/local_blast.hpp
>Xinclude/ncbi-tools++/algo/blast/api/local_db_adapter.hpp
>Xinclude/ncbi-tools++/algo/blast/api/local_search.hpp
>Xinclude/ncbi-tools++/algo/blast/api/msa_pssm_input.hpp
>Xinclude/ncbi-tools++/algo/blast/api/objmgr_query_data.hpp
>Xinclude/ncbi-tools++/algo/blast/api/objmgrfree_query_data.hpp
>Xinclude/ncbi-tools++/algo/blast/api/phiblast_nucl_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/phiblast_prot_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/prelim_stage.hpp
>Xinclude/ncbi-tools++/algo/blast/api/psi_pssm_input.hpp
>Xinclude/ncbi-tools++/algo/blast/api/psibl2seq.hpp
>Xinclude/ncbi-tools++/algo/blast/api/psiblast.hpp
>Xinclude/ncbi-tools++/algo/blast/api/psiblast_iteration.hpp
>Xinclude/ncbi-tools++/algo/blast/api/psiblast_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/pssm_engine.hpp
>Xinclude/ncbi-tools++/algo/blast/api/pssm_input.hpp
>Xinclude/ncbi-tools++/algo/blast/api/query_data.hpp
>Xinclude/ncbi-tools++/algo/blast/api/remote_blast.hpp
>Xinclude/ncbi-tools++/algo/blast/api/remote_search.hpp
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>Xinclude/ncbi-tools++/algo/blast/api/rpsblast_local.hpp
>Xinclude/ncbi-tools++/algo/blast/api/rpstblastn_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/search_strategy.hpp
>Xinclude/ncbi-tools++/algo/blast/api/seedtop.hpp
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>Xinclude/ncbi-tools++/algo/blast/api/seqsrc_multiseq.hpp
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>Xinclude/ncbi-tools++/algo/blast/api/sseqloc.hpp
>Xinclude/ncbi-tools++/algo/blast/api/subj_ranges_set.hpp
>Xinclude/ncbi-tools++/algo/blast/api/tblastn_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/tblastx_options.hpp
>Xinclude/ncbi-tools++/algo/blast/api/traceback_stage.hpp
>Xinclude/ncbi-tools++/algo/blast/api/uniform_search.hpp
>Xinclude/ncbi-tools++/algo/blast/api/version.hpp
>Xinclude/ncbi-tools++/algo/blast/api/windowmask_filter.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/blast_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/blast_fasta_input.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/blast_input.hpp
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>Xinclude/ncbi-tools++/algo/blast/blastinput/blastn_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/blastp_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/blastx_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/cmdline_flags.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/deltablast_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/igblastn_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/igblastp_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/psiblast_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/rmblastn_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/rpsblast_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/rpstblastn_args.hpp
>Xinclude/ncbi-tools++/algo/blast/blastinput/tblastn_args.hpp
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>Xinclude/ncbi-tools++/algo/blast/core/blast_diagnostics.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_encoding.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_engine.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_export.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_extend.h
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>Xinclude/ncbi-tools++/algo/blast/core/blast_hits.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_hspfilter.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_hspstream.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_kappa.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_lookup.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_message.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_nalookup.h
>Xinclude/ncbi-tools++/algo/blast/core/blast_nascan.h
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>Xinclude/ncbi-tools++/algo/blast/core/blast_program.h
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>Xinclude/ncbi-tools++/algo/blast/core/phi_lookup.h
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>Xinclude/ncbi-tools++/algo/blast/dbindex/dbindex.hpp
>Xinclude/ncbi-tools++/algo/blast/dbindex/dbindex_sp.hpp
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>Xinclude/ncbi-tools++/algo/blast/format/blastxml_format.hpp
>Xinclude/ncbi-tools++/algo/blast/format/build_archive.hpp
>Xinclude/ncbi-tools++/algo/blast/format/data4xmlformat.hpp
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>Xinclude/ncbi-tools++/algo/blast/igblast/igblast.hpp
>Xinclude/ncbi-tools++/algo/dustmask/sdust.tex
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>Xinclude/ncbi-tools++/algo/winmask/README.API
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>Xinclude/ncbi-tools++/algo/winmask/seq_masker_istat_obinary.hpp
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>Xlib/libaccess.a
>Xlib/libalign_format-static.a
>Xlib/libalign_format.a
>Xlib/libbiblio-static.a
>Xlib/libbiblio.a
>Xlib/libbiotree-static.a
>Xlib/libbiotree.a
>Xlib/libblast-static.a
>Xlib/libblast.a
>Xlib/libblast_app_util-static.a
>Xlib/libblast_app_util.a
>Xlib/libblast_services-static.a
>Xlib/libblast_services.a
>Xlib/libblastdb-static.a
>Xlib/libblastdb.a
>Xlib/libblastdb_format-static.a
>Xlib/libblastdb_format.a
>Xlib/libblastinput-static.a
>Xlib/libblastinput.a
>Xlib/libblastxml-static.a
>Xlib/libblastxml.a
>Xlib/libcdd-static.a
>Xlib/libcdd.a
>Xlib/libcn3d-static.a
>Xlib/libcn3d.a
>Xlib/libcomposition_adjustment-static.a
>Xlib/libcomposition_adjustment.a
>Xlib/libconnect-static.a
>Xlib/libconnect.a
>Xlib/libconnext-static.a
>Xlib/libconnext.a
>Xlib/libconnssl-static.a
>Xlib/libconnssl.a
>Xlib/libcreaders-static.a
>Xlib/libcreaders.a
>Xlib/libdbapi-static.a
>Xlib/libdbapi.a
>Xlib/libdbapi_driver-dll.so
>Xlib/libdbapi_driver-static.a
>Xlib/libdbapi_driver.a
>Xlib/libdocsum-static.a
>Xlib/libdocsum.a
>Xlib/libentrez2-static.a
>Xlib/libentrez2.a
>Xlib/libentrez2cli-static.a
>Xlib/libentrez2cli.a
>Xlib/libentrezgene-static.a
>Xlib/libentrezgene.a
>Xlib/libfeatdef-static.a
>Xlib/libfeatdef.a
>Xlib/libgbproj-static.a
>Xlib/libgbproj.a
>Xlib/libgbseq-static.a
>Xlib/libgbseq.a
>Xlib/libgencoll_client-static.a
>Xlib/libgencoll_client.a
>Xlib/libgene_info-static.a
>Xlib/libgene_info.a
>Xlib/libgeneral-static.a
>Xlib/libgeneral.a
>Xlib/libgenesbyloc-static.a
>Xlib/libgenesbyloc.a
>Xlib/libgenome_collection-static.a
>Xlib/libgenome_collection.a
>Xlib/libhomologene-static.a
>Xlib/libhomologene.a
>Xlib/libid1-static.a
>Xlib/libid1.a
>Xlib/libid1cli-static.a
>Xlib/libid1cli.a
>Xlib/libid2-static.a
>Xlib/libid2.a
>Xlib/libid2_split-static.a
>Xlib/libid2_split.a
>Xlib/libid2cli-static.a
>Xlib/libid2cli.a
>Xlib/libigblast-static.a
>Xlib/libigblast.a
>Xlib/libinsdseq-static.a
>Xlib/libinsdseq.a
>Xlib/libmacro-static.a
>Xlib/libmacro.a
>Xlib/libmedlars-static.a
>Xlib/libmedlars.a
>Xlib/libmedline-static.a
>Xlib/libmedline.a
>Xlib/libmim-static.a
>Xlib/libmim.a
>Xlib/libmla-static.a
>Xlib/libmla.a
>Xlib/libmlacli-static.a
>Xlib/libmlacli.a
>Xlib/libmmdb-static.a
>Xlib/libmmdb.a
>Xlib/libncbi_xblobstorage_netcache-static.a
>Xlib/libncbi_xblobstorage_netcache.a
>Xlib/libncbi_xcache_dbapi-dll.so
>Xlib/libncbi_xcache_dbapi-static.a
>Xlib/libncbi_xcache_dbapi.a
>Xlib/libncbi_xcache_netcache-dll.so
>Xlib/libncbi_xcache_netcache-static.a
>Xlib/libncbi_xcache_netcache.a
>Xlib/libncbi_xloader_blastdb-static.a
>Xlib/libncbi_xloader_blastdb.a
>Xlib/libncbi_xloader_blastdb_rmt-static.a
>Xlib/libncbi_xloader_blastdb_rmt.a
>Xlib/libncbi_xloader_genbank-dll.so
>Xlib/libncbi_xloader_genbank-static.a
>Xlib/libncbi_xloader_genbank.a
>Xlib/libncbi_xreader-dll.so
>Xlib/libncbi_xreader-static.a
>Xlib/libncbi_xreader.a
>Xlib/libncbi_xreader_cache-dll.so
>Xlib/libncbi_xreader_cache-static.a
>Xlib/libncbi_xreader_cache.a
>Xlib/libncbi_xreader_gicache-dll.so
>Xlib/libncbi_xreader_gicache-static.a
>Xlib/libncbi_xreader_gicache.a
>Xlib/libncbi_xreader_id1-dll.so
>Xlib/libncbi_xreader_id1-static.a
>Xlib/libncbi_xreader_id1.a
>Xlib/libncbi_xreader_id2-dll.so
>Xlib/libncbi_xreader_id2-static.a
>Xlib/libncbi_xreader_id2.a
>Xlib/libncbimime-static.a
>Xlib/libncbimime.a
>Xlib/libobjcoords-static.a
>Xlib/libobjcoords.a
>Xlib/libobjprt-static.a
>Xlib/libobjprt.a
>Xlib/libomssa-static.a
>Xlib/libomssa.a
>Xlib/libpcassay-static.a
>Xlib/libpcassay.a
>Xlib/libpcsubstance-static.a
>Xlib/libpcsubstance.a
>Xlib/libproj-static.a
>Xlib/libproj.a
>Xlib/libpub-static.a
>Xlib/libpub.a
>Xlib/libpubmed-static.a
>Xlib/libpubmed.a
>Xlib/libremap-static.a
>Xlib/libremap.a
>Xlib/libremapcli-static.a
>Xlib/libremapcli.a
>Xlib/libscoremat-static.a
>Xlib/libscoremat.a
>Xlib/libseq-static.a
>Xlib/libseq.a
>Xlib/libseqcode-static.a
>Xlib/libseqcode.a
>Xlib/libseqdb-static.a
>Xlib/libseqdb.a
>Xlib/libseqedit-static.a
>Xlib/libseqedit.a
>Xlib/libseqmasks_io-static.a
>Xlib/libseqmasks_io.a
>Xlib/libseqset-static.a
>Xlib/libseqset.a
>Xlib/libseqsplit-static.a
>Xlib/libseqsplit.a
>Xlib/libseqtest-static.a
>Xlib/libseqtest.a
>Xlib/libsequtil-static.a
>Xlib/libsequtil.a
>Xlib/libsubmit-static.a
>Xlib/libsubmit.a
>Xlib/libtables-static.a
>Xlib/libtables.a
>Xlib/libtaxon1-static.a
>Xlib/libtaxon1.a
>Xlib/libtaxon3-static.a
>Xlib/libtaxon3.a
>Xlib/libtest_mt-static.a
>Xlib/libtest_mt.a
>Xlib/libtinyseq-static.a
>Xlib/libtinyseq.a
>Xlib/libtrackmgr-static.a
>Xlib/libtrackmgr.a
>Xlib/libtrackmgrcli-static.a
>Xlib/libtrackmgrcli.a
>Xlib/libtrackmgrgridcli-static.a
>Xlib/libtrackmgrgridcli.a
>Xlib/libvalerr-static.a
>Xlib/libvalerr.a
>Xlib/libvalid-static.a
>Xlib/libvalid.a
>Xlib/libvariation-static.a
>Xlib/libvariation.a
>Xlib/libwritedb-static.a
>Xlib/libwritedb.a
>Xlib/libxalgoblastdbindex-static.a
>Xlib/libxalgoblastdbindex.a
>Xlib/libxalgodustmask-static.a
>Xlib/libxalgodustmask.a
>Xlib/libxalgosegmask-static.a
>Xlib/libxalgosegmask.a
>Xlib/libxalgowinmask-static.a
>Xlib/libxalgowinmask.a
>Xlib/libxalnmgr-static.a
>Xlib/libxalnmgr.a
>Xlib/libxblast-static.a
>Xlib/libxblast.a
>Xlib/libxblastformat-static.a
>Xlib/libxblastformat.a
>Xlib/libxcgi-static.a
>Xlib/libxcgi.a
>Xlib/libxcleanup-static.a
>Xlib/libxcleanup.a
>Xlib/libxcompress-static.a
>Xlib/libxcompress.a
>Xlib/libxconnect-static.a
>Xlib/libxconnect.a
>Xlib/libxconnext-static.a
>Xlib/libxconnext.a
>Xlib/libxconnserv-static.a
>Xlib/libxconnserv.a
>Xlib/libxcser-static.a
>Xlib/libxcser.a
>Xlib/libxfcgi-static.a
>Xlib/libxfcgi.a
>Xlib/libxformat-static.a
>Xlib/libxformat.a
>Xlib/libxhtml-static.a
>Xlib/libxhtml.a
>Xlib/libxncbi-static.a
>Xlib/libxncbi.a
>Xlib/libxnetblast-static.a
>Xlib/libxnetblast.a
>Xlib/libxnetblastcli-static.a
>Xlib/libxnetblastcli.a
>Xlib/libxobjmgr-static.a
>Xlib/libxobjmgr.a
>Xlib/libxobjread-static.a
>Xlib/libxobjread.a
>Xlib/libxobjreadex-static.a
>Xlib/libxobjreadex.a
>Xlib/libxobjsimple-static.a
>Xlib/libxobjsimple.a
>Xlib/libxobjutil-static.a
>Xlib/libxobjutil.a
>Xlib/libxregexp-static.a
>Xlib/libxregexp.a
>Xlib/libxser-static.a
>Xlib/libxser.a
>Xlib/libxthrserv-static.a
>Xlib/libxthrserv.a
>Xlib/libxutil-static.a
>Xlib/libxutil.a
>Xlib/libxxconnect-static.a
>Xlib/libxxconnect.a
>X@dirrm include/ncbi-tools++/algo/blast/api
>X@dirrm include/ncbi-tools++/algo/blast/blastinput
>X@dirrm include/ncbi-tools++/algo/blast/composition_adjustment
>X@dirrm include/ncbi-tools++/algo/blast/core
>X@dirrm include/ncbi-tools++/algo/blast/dbindex
>X@dirrm include/ncbi-tools++/algo/blast/format
>X@dirrm include/ncbi-tools++/algo/blast/igblast
>X@dirrm include/ncbi-tools++/algo/blast
>X@dirrm include/ncbi-tools++/algo/dustmask
>X@dirrm include/ncbi-tools++/algo/segmask
>X@dirrm include/ncbi-tools++/algo/winmask
>X@dirrm include/ncbi-tools++/algo
>X@dirrm include/ncbi-tools++/cgi/impl
>X@dirrm include/ncbi-tools++/cgi
>X@dirrm include/ncbi-tools++/common/config
>X@dirrm include/ncbi-tools++/common
>X@dirrm include/ncbi-tools++/connect/ext
>X@dirrm include/ncbi-tools++/connect/impl
>X@dirrm include/ncbi-tools++/connect/services
>X@dirrm include/ncbi-tools++/connect
>X@dirrm include/ncbi-tools++/corelib/hash_impl
>X@dirrm include/ncbi-tools++/corelib/impl
>X@dirrm include/ncbi-tools++/corelib
>X@dirrm include/ncbi-tools++/dbapi/cache
>X@dirrm include/ncbi-tools++/dbapi/driver/impl
>X@dirrm include/ncbi-tools++/dbapi/driver/odbc/unix_odbc
>X@dirrm include/ncbi-tools++/dbapi/driver/odbc
>X@dirrm include/ncbi-tools++/dbapi/driver/util
>X@dirrm include/ncbi-tools++/dbapi/driver
>X@dirrm include/ncbi-tools++/dbapi
>X@dirrm include/ncbi-tools++/html
>X@dirrm include/ncbi-tools++/objects/access
>X@dirrm include/ncbi-tools++/objects/biblio
>X@dirrm include/ncbi-tools++/objects/biotree
>X@dirrm include/ncbi-tools++/objects/blast
>X@dirrm include/ncbi-tools++/objects/blastdb
>X@dirrm include/ncbi-tools++/objects/blastxml
>X@dirrm include/ncbi-tools++/objects/cdd
>X@dirrm include/ncbi-tools++/objects/cn3d
>X@dirrm include/ncbi-tools++/objects/coords
>X@dirrm include/ncbi-tools++/objects/docsum
>X@dirrm include/ncbi-tools++/objects/entrez2
>X@dirrm include/ncbi-tools++/objects/entrezgene
>X@dirrm include/ncbi-tools++/objects/featdef
>X@dirrm include/ncbi-tools++/objects/gbproj
>X@dirrm include/ncbi-tools++/objects/gbseq
>X@dirrm include/ncbi-tools++/objects/general
>X@dirrm include/ncbi-tools++/objects/genesbyloc
>X@dirrm include/ncbi-tools++/objects/genomecoll
>X@dirrm include/ncbi-tools++/objects/homologene
>X@dirrm include/ncbi-tools++/objects/id1
>X@dirrm include/ncbi-tools++/objects/id2
>X@dirrm include/ncbi-tools++/objects/insdseq
>X@dirrm include/ncbi-tools++/objects/macro
>X@dirrm include/ncbi-tools++/objects/medlars
>X@dirrm include/ncbi-tools++/objects/medline
>X@dirrm include/ncbi-tools++/objects/mim
>X@dirrm include/ncbi-tools++/objects/misc
>X@dirrm include/ncbi-tools++/objects/mla
>X@dirrm include/ncbi-tools++/objects/mmdb1
>X@dirrm include/ncbi-tools++/objects/mmdb2
>X@dirrm include/ncbi-tools++/objects/mmdb3
>X@dirrm include/ncbi-tools++/objects/ncbimime
>X@dirrm include/ncbi-tools++/objects/objprt
>X@dirrm include/ncbi-tools++/objects/omssa
>X@dirrm include/ncbi-tools++/objects/pcassay
>X@dirrm include/ncbi-tools++/objects/pcsubstance
>X@dirrm include/ncbi-tools++/objects/proj
>X@dirrm include/ncbi-tools++/objects/pub
>X@dirrm include/ncbi-tools++/objects/pubmed
>X@dirrm include/ncbi-tools++/objects/remap
>X@dirrm include/ncbi-tools++/objects/scoremat
>X@dirrm include/ncbi-tools++/objects/seq
>X@dirrm include/ncbi-tools++/objects/seqalign
>X@dirrm include/ncbi-tools++/objects/seqblock
>X@dirrm include/ncbi-tools++/objects/seqcode
>X@dirrm include/ncbi-tools++/objects/seqedit
>X@dirrm include/ncbi-tools++/objects/seqfeat
>X@dirrm include/ncbi-tools++/objects/seqloc
>X@dirrm include/ncbi-tools++/objects/seqres
>X@dirrm include/ncbi-tools++/objects/seqset
>X@dirrm include/ncbi-tools++/objects/seqsplit
>X@dirrm include/ncbi-tools++/objects/seqtable
>X@dirrm include/ncbi-tools++/objects/seqtest
>X@dirrm include/ncbi-tools++/objects/submit
>X@dirrm include/ncbi-tools++/objects/taxon1
>X@dirrm include/ncbi-tools++/objects/taxon3
>X@dirrm include/ncbi-tools++/objects/tinyseq
>X@dirrm include/ncbi-tools++/objects/trackmgr
>X@dirrm include/ncbi-tools++/objects/valerr
>X@dirrm include/ncbi-tools++/objects/valid
>X@dirrm include/ncbi-tools++/objects/variation
>X@dirrm include/ncbi-tools++/objects
>X@dirrm include/ncbi-tools++/objmgr/impl
>X@dirrm include/ncbi-tools++/objmgr/split
>X@dirrm include/ncbi-tools++/objmgr/util
>X@dirrm include/ncbi-tools++/objmgr
>X@dirrm include/ncbi-tools++/objtools/align_format
>X@dirrm include/ncbi-tools++/objtools/alnmgr
>X@dirrm include/ncbi-tools++/objtools/blast/blastdb_format
>X@dirrm include/ncbi-tools++/objtools/blast/gene_info_reader
>X@dirrm include/ncbi-tools++/objtools/blast/seqdb_reader/impl
>X@dirrm include/ncbi-tools++/objtools/blast/seqdb_reader
>X@dirrm include/ncbi-tools++/objtools/blast/seqdb_writer/impl
>X@dirrm include/ncbi-tools++/objtools/blast/seqdb_writer
>X@dirrm include/ncbi-tools++/objtools/blast/services
>X@dirrm include/ncbi-tools++/objtools/blast
>X@dirrm include/ncbi-tools++/objtools/cleanup
>X@dirrm include/ncbi-tools++/objtools/data_loaders/blastdb
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/cache
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/gicache
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/id1
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/id2
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/pubseq
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/pubseq2
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/readers/cache
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/readers/id1
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/readers/id2
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/readers/pubseqos
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/readers/pubseqos2
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank/readers
>X@dirrm include/ncbi-tools++/objtools/data_loaders/genbank
>X@dirrm include/ncbi-tools++/objtools/data_loaders
>X@dirrm include/ncbi-tools++/objtools/format/items
>X@dirrm include/ncbi-tools++/objtools/format
>X@dirrm include/ncbi-tools++/objtools/readers
>X@dirrm include/ncbi-tools++/objtools/seqmasks_io
>X@dirrm include/ncbi-tools++/objtools/simple
>X@dirrm include/ncbi-tools++/objtools
>X@dirrm include/ncbi-tools++/serial/impl
>X@dirrm include/ncbi-tools++/serial
>X@dirrm include/ncbi-tools++/util/bitset
>X@dirrm include/ncbi-tools++/util/cache
>X@dirrm include/ncbi-tools++/util/compress/bzip2
>X@dirrm include/ncbi-tools++/util/compress/zlib
>X@dirrm include/ncbi-tools++/util/compress
>X@dirrm include/ncbi-tools++/util/creaders
>X@dirrm include/ncbi-tools++/util/impl
>X@dirrm include/ncbi-tools++/util/math
>X@dirrm include/ncbi-tools++/util/regexp
>X@dirrm include/ncbi-tools++/util/sequtil
>X@dirrm include/ncbi-tools++/util/tables
>X@dirrm include/ncbi-tools++/util/xregexp
>X@dirrm include/ncbi-tools++/util
>X@dirrm include/ncbi-tools++
>7ec228fb889d4ca1983a930120902723
>echo x - ncbi-blast/Makefile
>sed 's/^X//' >ncbi-blast/Makefile << '04ba67d1b8363af9a4cc002e8f9dee55'
>X# Created by: Jason Bacon <jwbacon@tds.net>
>X# $FreeBSD$
>X
>XPORTNAME=	blast
>XPORTVERSION=	2.2.29
>XCATEGORIES=	biology
>XMASTER_SITES=	ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/
>XPKGNAMEPREFIX=	ncbi
>XDISTNAME=	${PKGNAMEPREFIX}-${PORTNAME}-${PORTVERSION}+-src
>X
>XMAINTAINER=	jwbacon@tds.net
>XCOMMENT=	NCBI implementation of Basic Local Alignment Search Tool
>X
>XLICENSE=	Public_domain
>XLICENSE_NAME=	Public Domain
>XLICENSE_FILE=	${WRKSRC}/scripts/projects/blast/LICENSE
>XLICENSE_PERMS=	dist-mirror dist-sell pkg-mirror pkg-sell auto-accept
>X
>XLIB_DEPENDS=	libpcre.so:${PORTSDIR}/devel/pcre \
>X		libbz2.so:${PORTSDIR}/archivers/bzip2
>X
>XWRKSRC=		${WRKDIR}/${DISTNAME}/c++
>X
>XGNU_CONFIGURE=	yes
>XUSES=		gmake shebangfix perl5
>XSHEBANG_FILES=	src/app/blast/legacy_blast.pl \
>X		src/app/blast/update_blastdb.pl \
>X		src/app/winmasker/windowmasker_2.2.22_adapter.py
>X# Requires openmp
>XUSE_GCC=	yes
>XUSES=		python
>XUSE_LDCONFIG=	yes
>X
>X# configure chooses /usr/local/bin/ar with no flags
>X# FreeBSD boost port flagged by configure as untested version
>XCONFIGURE_ARGS+=AR="ar cr" --without-boost
>X
>X# Fix "undefined _ThreadRuneLocale" error on 10.0
>X# Add staging support to configure-generated Makefile
>Xpost-patch:
>X	${REINPLACE_CMD} \
>X		-e 's|@prefix@|${STAGEDIR}@prefix@|g' \
>X		${WRKSRC}/src/build-system/Makefile.in.top
>X
>Xpost-install:
>X	${STRIP_CMD} ${STAGEDIR}${PREFIX}/lib/*.so
>X
>X.include <bsd.port.mk>
>04ba67d1b8363af9a4cc002e8f9dee55
>echo x - ncbi-blast/submitted
>sed 's/^X//' >ncbi-blast/submitted << 'b429dad1caefbd9e4b3192d35456dd54'
>b429dad1caefbd9e4b3192d35456dd54
>echo x - ncbi-blast/todo
>sed 's/^X//' >ncbi-blast/todo << '6bb59bbbf3873de4b38efc84a8e95a11'
>X
>XNotify developers when FreeBSD port is committed.
>X(See end of submit checklist)
>X
>6bb59bbbf3873de4b38efc84a8e95a11
>exit
>

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Attachments on bug 190854: 143589 | 148035