Building plink-1.07_3.txz (origin /buildshare/ports/355755/biology/plink) for powerpc-10-0 on XXX
slot2: created
x distfiles/
x distfiles/plink-1.07-src.zip
x packages/
x packages/perl5-5.16.3_10.txz
x packages/mpfr-3.1.2_2.txz
x packages/binutils-2.24.txz
x packages/gcc-4.7.3_1.txz
x packages/gettext-0.18.3.1_1.txz
x packages/blas-3.4.2_2.txz
x packages/mpc-1.0.2.txz
x packages/bison-2.7.1,1.txz
x packages/m4-1.4.17_1,1.txz
x packages/gmake-3.82_1.txz
x packages/gmp-5.1.3_2.txz
x packages/python27-2.7.6_4.txz
x packages/lapack-3.4.2_2.txz
x packages/pkg-1.2.7_2.txz
ELF ldconfig path: /lib /usr/lib /usr/lib/compat
Make depends
===>   plink-1.07_3 depends on file: /usr/local/sbin/pkg - not found
===>    Verifying install for /usr/local/sbin/pkg in /buildshare/ports/355755/ports-mgmt/pkg
===>   Installing existing package /packages/pkg-1.2.7_2.txz
Installing pkg-1.2.7_2... done
If you are upgrading from the old package format, first run:

  # pkg2ng
===>   Returning to build of plink-1.07_3
===>   plink-1.07_3 depends on shared library: liblapack.so
 - not found
===>    Verifying for liblapack.so in /buildshare/ports/355755/math/lapack
===>   Installing existing package /packages/lapack-3.4.2_2.txz
Installing lapack-3.4.2_2...Installing blas-3.4.2_2...Installing gcc-4.7.3_1...Installing binutils-2.24...Installing gettext-0.18.3.1_1... done
 done
Installing gmp-5.1.3_2... done
Installing mpc-1.0.2...Installing mpfr-3.1.2_2... done
 done
 done
 done
 done
To ensure binaries built with this toolchain find appropriate versions
of the necessary run-time libraries, you may want to link using

  -Wl,-rpath=/usr/local/lib/gcc47

For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens
transparently.
===>   Returning to build of plink-1.07_3
===>   plink-1.07_3 depends on executable: gfortran47 - found
===>   plink-1.07_3 depends on executable: gmake - not found
===>    Verifying install for gmake in /buildshare/ports/355755/devel/gmake
===>   Installing existing package /packages/gmake-3.82_1.txz
Installing gmake-3.82_1... done
===>   Returning to build of plink-1.07_3
===>   plink-1.07_3 depends on file: /usr/local/bin/as - found
===>   plink-1.07_3 depends on executable: gfortran47 - found
Make install
===>  License GPLv2 accepted by the user
===>   plink-1.07_3 depends on file: /usr/local/sbin/pkg - found
===> Fetching all distfiles required by plink-1.07_3 for building
===>  Extracting for plink-1.07_3
=> SHA256 Checksum OK for plink-1.07-src.zip.
===>  Patching for plink-1.07_3
===>  Applying FreeBSD patches for plink-1.07_3
===>   plink-1.07_3 depends on executable: gfortran47 - found
===>   plink-1.07_3 depends on executable: gmake - found
===>   plink-1.07_3 depends on file: /usr/local/bin/as - found
===>   plink-1.07_3 depends on shared library: liblapack.so - found (/usr/local/lib/liblapack.so.4)
===>  Configuring for plink-1.07_3
===>  Building for plink-1.07_3
gmake[1]: Entering directory `/obj/buildshare/ports/355755/biology/plink/work/plink-1.07-src'
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c plink.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c options.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c input.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c binput.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c tinput.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c genome.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c helper.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c stats.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c filters.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c locus.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c multi.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c crandom.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c cluster.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c mds.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c output.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c informative.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c assoc.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c epi.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c prephap.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c phase.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c trio.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c tdt.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c sharing.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c genepi.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c sets.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c perm.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c mh.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c genedrop.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c gxe.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c merge.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c hotel.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c multiple.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c haploCC.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c haploTDT.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c poo.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c webcheck.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c qfam.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c linear.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c bmerge.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c parse.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c mishap.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c legacy.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c homozyg.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c segment.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c model.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c logistic.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c glm.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c dcdflib.cpp
dcdflib.cpp: In function 'void E0000(int, int*, double*, double*, long unsigned int*, long unsigned int*, double*, double*, double*, double*, double*, double*, double*)':
dcdflib.cpp:6025: warning: deprecated conversion from string constant to 'char*'
dcdflib.cpp: In function 'double dlanor(double*)':
dcdflib.cpp:6401: warning: deprecated conversion from string constant to 'char*'
dcdflib.cpp: In function 'double dstrem(double*)':
dcdflib.cpp:6782: warning: deprecated conversion from string constant to 'char*'
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c elf.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c dfam.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c fisher.cpp
fisher.cpp: In function 'void fexact(int*, int*, double*, int*, double*, double*, double*, double*, double*, int*)':
fisher.cpp:261: warning: deprecated conversion from string constant to 'char*'
fisher.cpp:267: warning: deprecated conversion from string constant to 'char*'
fisher.cpp:273: warning: deprecated conversion from string constant to 'char*'
fisher.cpp: In function 'void f2xact(int*, int*, double*, int*, double*, double*, double*, double*, double*, double*, int*, int*, int*, int*, int*, int*, int*, int*, double*, int*, int*, double*, double*, double*, int*, int*, double*)':
fisher.cpp:448: warning: deprecated conversion from string constant to 'char*'
fisher.cpp:450: warning: deprecated conversion from string constant to 'char*'
fisher.cpp:501: warning: deprecated conversion from string constant to 'char*'
fisher.cpp:509: warning: deprecated conversion from string constant to 'char*'
fisher.cpp:563: warning: deprecated conversion from string constant to 'char*'
fisher.cpp:751: warning: deprecated conversion from string constant to 'char*'
fisher.cpp: In function 'void f5xact(double*, const double*, int*, int*, int*, int*, double*, int*, int*, int*, int*, int*, int*, int*, int*)':
fisher.cpp:1539: warning: deprecated conversion from string constant to 'char*'
fisher.cpp:1555: warning: deprecated conversion from string constant to 'char*'
fisher.cpp:1597: warning: deprecated conversion from string constant to 'char*'
fisher.cpp: In function 'int iwork(int, int*, int, int)':
fisher.cpp:2001: warning: deprecated conversion from string constant to 'char*'
fisher.cpp: In function 'void isort(int*, int*)':
fisher.cpp:2078: warning: deprecated conversion from string constant to 'char*'
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c linput.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c sockets.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c lookup.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c proxy.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c pdriver.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c haploQTL.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c haplohelper.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c haplowindow.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c genogroup.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c nonfounderphasing.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c clumpld.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c genoerr.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c em.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c impute.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c metaem.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c profile.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c nlist.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c whap.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c simul.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c gvar.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c cnv.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c step.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c greport.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c flip.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c qualscores.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c cnvqt.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c cfamily.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c setscreen.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c idhelp.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c tag.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c hapglm.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c lookup2.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c blox.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c zed.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c dosage.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c annot.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c metaanal.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c r.cpp
In file included from r.cpp:29:
Rconnection.h: In constructor 'Rsymbol::Rsymbol(Rmessage*)':
Rconnection.h:203: warning: deprecated conversion from string constant to 'char*'
Rconnection.h: In constructor 'Rsymbol::Rsymbol(unsigned int*, Rmessage*)':
Rconnection.h:206: warning: deprecated conversion from string constant to 'char*'
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c Rconnection.cpp
In file included from Rconnection.cpp:30:
Rconnection.h: In constructor 'Rsymbol::Rsymbol(Rmessage*)':
Rconnection.h:203: warning: deprecated conversion from string constant to 'char*'
Rconnection.h: In constructor 'Rsymbol::Rsymbol(unsigned int*, Rmessage*)':
Rconnection.h:206: warning: deprecated conversion from string constant to 'char*'
Rconnection.cpp: At global scope:
Rconnection.cpp:56: warning: deprecated conversion from string constant to 'char*'
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c zfstream.cpp
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c lapackf.cpp
lapackf.cpp: In function 'bool svd_lapack(int, vector_t&, vector_t&, matrix_t&)':
lapackf.cpp:58: warning: deprecated conversion from string constant to 'char*'
lapackf.cpp:63: warning: deprecated conversion from string constant to 'char*'
lapackf.cpp: In function 'bool eigen_lapack(int, vector_t&, vector_t&, matrix_t&)':
lapackf.cpp:132: warning: deprecated conversion from string constant to 'char*'
lapackf.cpp:132: warning: deprecated conversion from string constant to 'char*'
lapackf.cpp:132: warning: deprecated conversion from string constant to 'char*'
lapackf.cpp:158: warning: deprecated conversion from string constant to 'char*'
lapackf.cpp:158: warning: deprecated conversion from string constant to 'char*'
lapackf.cpp:158: warning: deprecated conversion from string constant to 'char*'
c++ -O2 -pipe -fno-strict-aliasing -I. -DUNIX -Dfopen64=fopen -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -o plink plink.o options.o input.o binput.o tinput.o genome.o helper.o stats.o filters.o locus.o multi.o crandom.o cluster.o mds.o output.o informative.o assoc.o epi.o prephap.o phase.o trio.o tdt.o sharing.o genepi.o sets.o perm.o mh.o genedrop.o gxe.o merge.o hotel.o multiple.o haploCC.o haploTDT.o poo.o webcheck.o qfam.o linear.o bmerge.o parse.o mishap.o legacy.o homozyg.o segment.o model.o logistic.o glm.o dcdflib.o elf.o dfam.o fisher.o linput.o sockets.o lookup.o proxy.o pdriver.o haploQTL.o haplohelper.o haplowindow.o genogroup.o nonfounderphasing.o clumpld.o genoerr.o em.o impute.o metaem.o profile.o nlist.o whap.o simul.o gvar.o cnv.o step.o greport.o flip.o qualscores.o cnvqt.o cfamily.o setscreen.o idhelp.o tag.o hapglm.o lookup2.o blox.o zed.o dosage.o annot.o metaanal.o r.o Rconnection.o zfstream.o lapackf.o -lcrypt -lz  -Wl,-rpath=/usr/local/lib/gcc47  -L/usr/local/lib/gcc47 -B/usr/local/bin -L/usr/local/lib -llapack -lblas  
gmake[1]: Leaving directory `/obj/buildshare/ports/355755/biology/plink/work/plink-1.07-src'
===>  Staging for plink-1.07_3
===>   plink-1.07_3 depends on executable: gfortran47 - found
===>   Generating temporary packing list
/bin/mkdir -p /obj/buildshare/ports/355755/biology/plink/work/stage/usr/local/bin
install  -s -o root -g wheel -m 555 /obj/buildshare/ports/355755/biology/plink/work/plink-1.07-src/plink /obj/buildshare/ports/355755/biology/plink/work/stage/usr/local/bin
====> Compressing man pages (compress-man)
===>  Installing for plink-1.07_3
===>  Checking if biology/plink already installed
===>   Registering installation for plink-1.07_3
Installing plink-1.07_3... done
Make package
===>  Building package for plink-1.07_3
slot2: removed