=> Bootstrap dependency digest>=20010302: found digest-20160304
===> Skipping vulnerability checks.
WARNING: No /var/db/pkg/pkg-vulnerabilities file found.
WARNING: To fix run: `/usr/sbin/pkg_admin -K /var/db/pkg fetch-pkg-vulnerabilities'.
=> Checksum SHA1 OK for ncbi-blast-2.7.1+-src.tar.gz
=> Checksum RMD160 OK for ncbi-blast-2.7.1+-src.tar.gz
=> Checksum SHA512 OK for ncbi-blast-2.7.1+-src.tar.gz
===> Installing dependencies for ncbi-blast+-2.7.1nb1
==========================================================================
The following variables will affect the build process of this package,
ncbi-blast+-2.7.1nb1. Their current value is shown below:
* PYTHON_VERSION_DEFAULT = 27
Based on these variables, the following variables have been set:
* PYPACKAGE = python27
You may want to abort the process now with CTRL-C and change their value
before continuing. Be sure to run `/usr/bin/make clean' after
the changes.
==========================================================================
=> Tool dependency gmake>=3.81: found gmake-4.1nb4
=> Tool dependency checkperms>=1.1: found checkperms-1.12
=> Build dependency cwrappers>=20150314: found cwrappers-20180325
=> Full dependency lzo>=2.01: found lzo-2.10
=> Full dependency pcre>=8.30nb1: found pcre-8.42
=> Full dependency lmdb>=0.9.14: found lmdb-0.9.18nb1
=> Full dependency gnutls>=3.6.0nb1: found gnutls-3.6.0nb3
=> Full dependency libtasn1>=0.3.0: found libtasn1-4.12nb1
=> Full dependency nettle>=3.1.1: found nettle-3.4
=> Full dependency gmp>=5.0.1: found gmp-6.1.2
=> Full dependency p11-kit>=0.23: found p11-kit-0.23.10
=> Full dependency libidn2>=2.0.0: found libidn2-2.0.4
=> Full dependency libgcrypt>=1.6.0: found libgcrypt-1.8.3
=> Full dependency libgpg-error>=1.10nb1: found libgpg-error-1.31
=> Full dependency python27>=2.7.1nb2: found python27-2.7.15nb1
===> Overriding tools for ncbi-blast+-2.7.1nb1
===> Extracting for ncbi-blast+-2.7.1nb1
===> Patching for ncbi-blast+-2.7.1nb1
=> Applying pkgsrc patches for ncbi-blast+-2.7.1nb1
=> Verifying /data/pkgsrc/biology/ncbi-blast+/patches/patch-compilers_xcode30__prj_configure
=> Applying pkgsrc patch /data/pkgsrc/biology/ncbi-blast+/patches/patch-compilers_xcode30__prj_configure
Hmm... Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-compilers_xcode30__prj_configure,v 1.1 2018/04/27 20:28:28 bacon Exp $
|
|# Nonportable extension
|
|--- compilers/xcode30_prj/configure.orig 2018-04-27 14:19:43.000000000 +0000
|+++ compilers/xcode30_prj/configure
--------------------------
Patching file compilers/xcode30_prj/configure using Plan A...
Hunk #1 succeeded at 280.
done
=> Verifying /data/pkgsrc/biology/ncbi-blast+/patches/patch-src_algo_blast_core_blast__kappa.c
=> Applying pkgsrc patch /data/pkgsrc/biology/ncbi-blast+/patches/patch-src_algo_blast_core_blast__kappa.c
Hmm... Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-src_algo_blast_core_blast__kappa.c,v 1.1 2018/04/27 20:28:28 bacon Exp $
|
|# Work around NetBSD stderr def choking macro
|
|--- src/algo/blast/core/blast_kappa.c.orig 2018-03-26 21:55:44.000000000 +0000
|+++ src/algo/blast/core/blast_kappa.c
--------------------------
Patching file src/algo/blast/core/blast_kappa.c using Plan A...
Hunk #1 succeeded at 32.
Hunk #2 succeeded at 3405.
done
=> Verifying /data/pkgsrc/biology/ncbi-blast+/patches/patch-src_build-system_Makefile.in.top
=> Applying pkgsrc patch /data/pkgsrc/biology/ncbi-blast+/patches/patch-src_build-system_Makefile.in.top
Hmm... Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-src_build-system_Makefile.in.top,v 1.1 2018/04/27 20:28:28 bacon Exp $
|
|# Add destdir suppot and fix perms on installed files
|
|--- src/build-system/Makefile.in.top.orig 2017-02-01 16:52:02.000000000 +0000
|+++ src/build-system/Makefile.in.top
--------------------------
Patching file src/build-system/Makefile.in.top using Plan A...
Hunk #1 succeeded at 37.
done
=> Verifying /data/pkgsrc/biology/ncbi-blast+/patches/patch-src_build-system_cmake_cmake-configure
=> Applying pkgsrc patch /data/pkgsrc/biology/ncbi-blast+/patches/patch-src_build-system_cmake_cmake-configure
Hmm... Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-src_build-system_cmake_cmake-configure,v 1.1 2018/04/27 20:28:28 bacon Exp $
|
|# Fix portability issue
|
|--- src/build-system/cmake/cmake-configure.orig 2018-03-26 14:13:44.229849356 +0000
|+++ src/build-system/cmake/cmake-configure
--------------------------
Patching file src/build-system/cmake/cmake-configure using Plan A...
Hunk #1 succeeded at 468.
done
=> Verifying /data/pkgsrc/biology/ncbi-blast+/patches/patch-src_build-system_configure
=> Applying pkgsrc patch /data/pkgsrc/biology/ncbi-blast+/patches/patch-src_build-system_configure
Hmm... Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-src_build-system_configure,v 1.1 2018/04/27 20:28:28 bacon Exp $
|
|# Fix support for localstatedir
|
|--- src/build-system/configure.orig 2018-02-19 01:32:40 UTC
|+++ src/build-system/configure
--------------------------
Patching file src/build-system/configure using Plan A...
Hunk #1 succeeded at 1755.
done
=> Verifying /data/pkgsrc/biology/ncbi-blast+/patches/patch-src_build-system_helpers_Makefile.run__with__lock.app
=> Applying pkgsrc patch /data/pkgsrc/biology/ncbi-blast+/patches/patch-src_build-system_helpers_Makefile.run__with__lock.app
Hmm... Looks like a unified diff to me...
The text leading up to this was:
--------------------------
|$NetBSD: patch-src_build-system_helpers_Makefile.run__with__lock.app,v 1.2 2018/05/22 21:37:29 bacon Exp $
|
|# Missing RELRO for this one binary
|# https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=820959
|
|--- src/build-system/helpers/Makefile.run_with_lock.app.orig 2016-02-23 17:06:47.000000000 +0000
|+++ src/build-system/helpers/Makefile.run_with_lock.app
--------------------------
Patching file src/build-system/helpers/Makefile.run_with_lock.app using Plan A...
Hunk #1 succeeded at 6.
done
=> Substituting "configure" in /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/src/build-system/configure
===> Creating toolchain wrappers for ncbi-blast+-2.7.1nb1
===> Configuring for ncbi-blast+-2.7.1nb1
=> Modifying GNU configure scripts to avoid --recheck
=> Replacing config-guess with pkgsrc versions
=> Replacing config-sub with pkgsrc versions
=> Replacing install-sh with pkgsrc version
=> Replacing python interpreter in src/app/winmasker/windowmasker_2.2.22_adapter.py.
=> Replacing Perl interpreter in src/app/blast/legacy_blast.pl src/app/blast/update_blastdb.pl.
=> Checking for portability problems in extracted files
WARNING: [check-portability.awk] => Found $RANDOM:
WARNING: [check-portability.awk] scripts/common/impl/define_random_macros.sh: $SHELL -c 'echo $RANDOM $RANDOM $RANDOM; ps $$' | cksum | \
Explanation:
===========================================================================
The variable $RANDOM is not required for a POSIX-conforming shell, and
many implementations of /bin/sh do not support it. It should therefore
not be used in shell programs that are meant to be portable across a
large number of POSIX-like systems.
===========================================================================
configure: loading site script ./src/build-system/config.site
configure: creating cache config.cache
checking TeamCity build number... none
checking Subversion revision... svn: not found
unknown
checking NCBI stable components' version... svn: not found
unknown
checking build system type... x86_64--netbsd
checking host system type... x86_64--netbsd
checking for a BSD-compatible install... /usr/bin/install -c -o pbulkXXX -g users
checking for x86_64--netbsd-gcc... clang
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether clang accepts -g... yes
checking for clang option to accept ISO C89... none needed
checking how to run the C preprocessor... clang -E
checking for gcc... gcc
checking whether we are using the GNU C compiler... (cached) yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking how to run the C preprocessor... gcc -E
checking whether we are using the GNU C++ compiler... yes
checking whether clang++ accepts -g... yes
adjusted C compiler: /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang
adjusted C++ compiler: /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang++
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang has an option to export all symbols... -Wl,-export-dynamic
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang supports -Wl,--{en,dis}able-new-dtags... yes
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang has an option to discard unneeded shared libraries... -Wl,--as-needed
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang has an option to link in whole static archives... -Wl,--whole-archive
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang++ supports -stdlib=libc++... yes
checking whether _LIBCPP_VERSION is declared... yes
checking how to enable C++ '11 features in /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang++ -stdlib=libc++... -std=gnu++11
checking how to enable C '11 or at least '99 features in /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang ... -std=gnu11 -fgnu89-inline
checking for dpkg-architecture... no
checking for gawk... /usr/bin/awk
checking for GNU make... make
checking for make... /data/scratch/biology/ncbi-blast+/work/.tools/bin/make
checking whether ln -s works... yes
checking for x86_64--netbsd-ranlib... no
checking for ranlib... ranlib
checking for ar... ar cr
checking ranlib's effectiveness... neutral
checking for strip... strip
checking whether strip loses runtime type information... no
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checking for tail... /data/scratch/biology/ncbi-blast+/work/.tools/bin/tail
checking whether /data/scratch/biology/ncbi-blast+/work/.tools/bin/tail accepts modern syntax (-n N)... yes
checking for basename... /data/scratch/biology/ncbi-blast+/work/.tools/bin/basename
checking for sed... /usr/bin/sed
checking for touch... /usr/bin/touch
checking for grep that handles long lines and -e... (cached) /usr/bin/grep
checking for egrep... (cached) /usr/bin/egrep
checking how to run /usr/bin/egrep quietly... /usr/bin/egrep -q
checking for valgrind... no
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checking whether /usr/bin/ldd accepts -r... no
checking for uuidgen... /usr/bin/uuidgen
checking for cd_reporter... no
checking how to run the C++ preprocessor... /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang++ -stdlib=libc++ -std=gnu++11 -E
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
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checking for string.h... yes
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checking for size_t... (cached) yes
checking size of size_t... 8
checking for amq... /usr/sbin/amq
checking whether /usr/sbin/amq -w works... (cached) no
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang -std=gnu11 -fgnu89-inline supports -Wl,--no-allow-shlib-undefined... yes
checking how to run the C preprocessor... clang -E
checking whether cross-directory hard links work... yes
checking iostream usability... yes
checking iostream presence... yes
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checking iostream.h usability... no
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checking fstream usability... yes
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checking fstream.h usability... no
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checking locale.h usability... yes
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checking malloc.h usability... yes
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checking netdb.h usability... yes
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checking netinet/in.h usability... yes
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checking cxxabi.h usability... yes
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checking for getlogin_r... yes
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checking return type of localtime_r... struct
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checking return type of signal handlers... void
checking whether select updates the timeout when interrupted... no
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checking for readdir_r... 3
checking for an ANSI C-conforming const... yes
checking whether byte ordering is bigendian... no
checking whether char is unsigned... no
checking for char... yes
checking size of char... 1
checking for double... yes
checking size of double... 8
checking for float... yes
checking size of float... 4
checking for int... yes
checking size of int... 4
checking for long... yes
checking size of long... 8
checking for long double... yes
checking size of long double... 16
checking for long long... yes
checking size of long long... 8
checking for short... yes
checking size of short... 2
checking for void*... yes
checking size of void*... 8
checking for wchar_t... yes
checking size of wchar_t... 4
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checking size of __int64... 0
checking for intptr_t... yes
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checking for struct sockaddr_in.sin_len... yes
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checking whether function prototypes can use throw(...)... yes
checking for ios(_base)::register_callback... yes
checking for SysV semaphores... yes
checking for union semun... no
checking which way the stack grows... down
checking whether the preprocessor supports C99-style variadic macros... yes
checking whether the preprocessor supports GNU-style variadic macros... yes
checking syntax for marking deprecated functions... __attribute__((__deprecated__))
checking how to force inlining... inline __attribute__((always_inline))
checking whether the C compiler supports __attribute__((destructor))... yes
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang -std=gnu11 -fgnu89-inline supports __attribute__((visibility("default")))... (cached) unnecessary
checking whether the C compiler supports C99 restrict... __restrict__
checking whether the C++ compiler supports C99 restrict... __restrict__
checking syntax for marking functions that never return... __attribute__((__noreturn__))
checking syntax for marking functions whose result should be checked... __attribute__((warn_unused_result))
checking syntax for declaring thread-local variables... __thread
checking syntax for marking types as packed to save memory... __attribute__((__packed__))
checking whether FIONBIO requires BSD_COMP to be defined... no
checking whether INADDR_NONE is defined... yes
checking whether unaligned reads are permissible... yes
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang -std=gnu11 -fgnu89-inline supports SIMD vector arithmetic... yes
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang -std=gnu11 -fgnu89-inline supports -funsafe-math-optimizations... yes
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang -std=gnu11 -fgnu89-inline supports -msse4.1... no
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang -std=gnu11 -fgnu89-inline supports -maes... yes
checking whether /data/scratch/biology/ncbi-blast+/work/.cwrapper/bin/clang -std=gnu11 -fgnu89-inline supports -fdiagnostics-color=always... yes
checking whether in-house NCBI resources are available... no
checking for gethostbyname in -lnsl... no
checking for connect in -lsocket... no
checking for res_search in -lresolv... yes
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checking for library containing kstat_open... no
checking for library containing rstat... no
checking for library containing setkey... -lcrypt
checking for library containing dlopen... none required
checking for library containing uuid_generate... no
checking for library containing fuse_loop... no
checking for library containing clock_gettime... none required
checking for library containing cplus_demangle... no
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checking for library containing iconv... none required
checking for iconv declaration...
extern size_t iconv (iconv_t cd, const char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft);
checking for libz... yes
checking for libbz2... yes
checking for liblzo2... yes
checking for libpcre in /usr/pkg... yes
configure: using local mbedTLS copy in connect/mbedtls
checking for libgmp... yes
checking for libgcrypt-config... /usr/pkg/bin/libgcrypt-config
checking for libgcrypt in /usr/pkg... yes
checking for libhogweed... yes
checking for libgnutls-config... no
checking for libgnutls... yes
checking for libssl... yes
fmt: Max length (1) must be greater than goal length (65)
checking for krb5-config... /usr/bin/krb5-config
checking for libgssapi_krb5 in /... no
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checking for reentrant Sybase libraries... no
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checking for python... /usr/pkg/bin/python2.7
checking for usable Python 2.7 libraries... yes
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checking for python2.7... /usr/pkg/bin/python2.7
checking for usable Python 2.7 libraries... yes
checking for python3... no
checking for perl... /data/scratch/biology/ncbi-blast+/work/.tools/bin/perl
ERROR: To use this tool, add USE_TOOLS+=perl to the package Makefile.
ERROR: To use this tool, add USE_TOOLS+=perl to the package Makefile.
ERROR: To use this tool, add USE_TOOLS+=perl to the package Makefile.
checking for usable Perl libraries... no
checking for the NCBI C toolkit... no
checking for X... no
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checking for XtMainLoop in -lXt... no
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gtk-config: not found
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checking for NCBI SSS directories in /sss/BUILD... no
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icu-config: not found
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checking sqlite3async.h usability... no
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config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/pcsubstance/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/taxon1/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/seqsplit/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/entrezgene/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/variation/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/biblio/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/id1/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/seqset/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/homologene/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/omssa/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/objects/blastxml/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/misc/third_party/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/misc/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/misc/third_party_static/Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/./Makefile
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/inc/common/ncbi_build_ver.h
config.status: creating /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/inc/ncbiconf_unix.h
config.status: executing default commands
/data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/corelib/ncbicfg.c is updated
/data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/inc/common/ncbi_build_ver.h is updated
/data/scratch/biology/ncbi-blast+/work/.tools/bin/make -f /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/Makefile.app.tmpl srcdir=/data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/src/build-system/helpers TMPL=run_with_lock -k all
make[1]: Entering directory '/data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/build-system/helpers'
Updating dependency information for /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/src/build-system/helpers/run_with_lock.c.
gcc -c -g -O2 -Wall -Wno-format-y2k -pthread -O2 -I/usr/include -I/usr/pkg/include -Wno-deprecated-register -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/include -I/usr/pkg/include -D_MT -D_REENTRANT -D_THREAD_SAFE -D__RUNETYPE_INTERNAL -I/data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/inc -I/data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/include /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/src/build-system/helpers/run_with_lock.c -o run_with_lock.o
gcc -Wl,-rpath,/usr/pkg/lib/ncbi-tools++ -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O run_with_lock.o -Wl,-rpath-link,/data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/lib -L/data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/lib -lm -lpthread -o run_with_lock
strip run_with_lock
/bin/sh /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/scripts/common/impl/if_diff.sh /bin/ln -f run_with_lock /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/bin
/bin/ln -f run_with_lock /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/bin/run_with_lock
make[1]: Leaving directory '/data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/build-system/helpers'
Platform not defined for NetBSD amd64 -- please fix me
Prebuilt project_tree_builder not found
===============================================================================
NCBI C++ Toolkit documentation:
Online: http://www.ncbi.nlm.nih.gov/toolkit/doc/book/
Local: ./doc/public/index.html
For the available configuration flags run: ./configure --help
CFLAGS = -Wall -Wno-format-y2k -pthread -O2 -I/usr/include -I/usr/pkg/include -Wno-deprecated-register -fPIC
CXXFLAGS = -Wall -Wno-format-y2k -pthread -O2 -I/usr/include -I/usr/pkg/include -Wno-deprecated-register -fPIC
CPPFLAGS = -DNDEBUG -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -I/usr/include -I/usr/pkg/include -D_MT -D_REENTRANT -D_THREAD_SAFE -D__RUNETYPE_INTERNAL
LDFLAGS = -Wl,--enable-new-dtags -Wl,-export-dynamic -pthread -L/usr/lib -Wl,-R/usr/lib -L/usr/pkg/lib -Wl,-R/usr/pkg/lib -O
LIBRARIES: build as static by default
FEATURES: GCC MT LFS DLL unix WinMain BSD
PACKAGES:
enabled: Iconv Z BZ2 LZO PCRE MBEDTLS GMP GMP GCRYPT NETTLE NETTLE GNUTLS OPENSSL PYTHON PYTHON27 EXPAT SQLITE3 MAGIC LMDB
disabled: UUID FUSE LIBUNWIND LocalZ LocalBZ2 LocalPCRE KRB5 CURL Sybase DBLib FreeTDS MySQL BerkeleyDB BerkeleyDB++ ODBC PYTHON25 PYTHON26 PYTHON3 PERL Boost.Filesystem Boost.Iostreams Boost.Program-Options Boost.Regex Boost.Spirit Boost.System Boost.Test Boost.Test.Included Boost.Thread C-Toolkit OpenGL MESA GLUT GLEW wxWidgets wx2.8 Fast-CGI LocalSSS LocalMSGMAIL2 SSSUTILS LocalNCBILS NCBILS2 SSSDB SP ORBacus ICU SABLOT LIBXML LIBXSLT LIBEXSLT Xerces Xalan Zorba SQLITE3ASYNC VDB OECHEM SGE MUPARSER HDF5 JPEG PNG TIFF GIF UNGIF XPM FreeType FTGL MIMETIC GSOAP AVRO Cereal SASL2 MONGODB MONGODB3 GMOCK LAPACK LocalLMDB LIBUV LIBSSH2 CASSANDRA LIBXLSXWRITER GRPC
PROJECTS:
enabled: cgi serial objects dbapi app algo
disabled: local_lbsm connext ncbi_crypt bdb ctools gui gbench
Tools / flags / paths: /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build/Makefile.mk
Configuration header: /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/inc/ncbiconf_unix.h
To build everything: cd /data/scratch/biology/ncbi-blast+/work/ncbi-blast-2.7.1+-src/c++/ReleaseMT/build && /data/scratch/biology/ncbi-blast+/work/.tools/bin/make all_r
or simply run /data/scratch/biology/ncbi-blast+/work/.tools/bin/make in the current directory
******* CONFIGURATION SUCCESSFUL *******
WARNING: Please add USE_TOOLS+=perl to the package Makefile.
WARNING: Please add USE_TOOLS+=perl to the package Makefile.
WARNING: Please add USE_TOOLS+=perl to the package Makefile.