=> Bootstrap dependency digest>=20211023: found digest-20220214 ===> Skipping vulnerability checks. WARNING: No /usr/pkg/pkgdb/pkg-vulnerabilities file found. WARNING: To fix run: `/usr/sbin/pkg_admin -K /usr/pkg/pkgdb fetch-pkg-vulnerabilities'. ===> Building for plink-1.07nb1 c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c plink.cpp c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c options.cpp c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c input.cpp c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c binput.cpp distcc[27519] (dcc_select_for_write) ERROR: IO timeout distcc[29684] (dcc_select_for_write) ERROR: IO timeout distcc[10589] (dcc_select_for_write) ERROR: IO timeout distcc[29684] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[10589] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[29684] Warning: failed to distribute plink.cpp to 10.0.20.122:3760, running locally instead distcc[9356] (dcc_select_for_write) ERROR: IO timeout distcc[27519] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[9356] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[10589] Warning: failed to distribute binput.cpp to 10.0.20.122:3760, running locally instead distcc[27519] Warning: failed to distribute input.cpp to 10.0.20.122:3760, running locally instead distcc[9356] Warning: failed to distribute options.cpp to 10.0.20.122:3760, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c tinput.cpp distcc[5214] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c genome.cpp distcc[25685] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c helper.cpp distcc[21316] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c stats.cpp distcc[2286] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c filters.cpp distcc[18402] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c locus.cpp distcc[16160] (dcc_build_somewhere) Warning: failed to distribute, running locally instead helper.cpp: In member function 'std::string CArgs::value(std::string)': helper.cpp:218:35: warning: control reaches end of non-void function [-Wreturn-type] 218 | error("Missing an argument for "+s); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ helper.cpp: In member function 'int CArgs::value_int(std::string)': helper.cpp:231:35: warning: control reaches end of non-void function [-Wreturn-type] 231 | error("Missing an argument for "+s); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ helper.cpp: In member function 'long unsigned int CArgs::value_lui(std::string)': helper.cpp:243:35: warning: control reaches end of non-void function [-Wreturn-type] 243 | error("Missing an argument for "+s); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ helper.cpp: In member function 'double CArgs::value_double(std::string)': helper.cpp:255:35: warning: control reaches end of non-void function [-Wreturn-type] 255 | error("Missing an argument for "+s); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~ helper.cpp: In function 'int getInt(std::string, std::string)': helper.cpp:378:48: warning: control reaches end of non-void function [-Wreturn-type] 378 | error("Not valid integer argument for : "+a+" [ "+s+" ]"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ helper.cpp: In function 'long unsigned int getLongUnsignedInt(std::string, std::string)': helper.cpp:391:48: warning: control reaches end of non-void function [-Wreturn-type] 391 | error("Not valid integer argument for : "+a+" [ "+s+" ]"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ helper.cpp: In function 'double getDouble(std::string, std::string)': helper.cpp:404:48: warning: control reaches end of non-void function [-Wreturn-type] 404 | error("Not valid numeric argument for : "+a+" [ "+s+" ]"); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~ c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c multi.cpp distcc[12850] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c crandom.cpp distcc[16618] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c cluster.cpp distcc[13364] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c mds.cpp distcc[14567] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c output.cpp distcc[12543] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c informative.cpp distcc[21312] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c assoc.cpp distcc[4255] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c epi.cpp distcc[5175] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c prephap.cpp c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c phase.cpp distcc[7498] (dcc_select_for_write) ERROR: IO timeout distcc[7498] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[7498] Warning: failed to distribute prephap.cpp to 10.0.20.122:3760, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c trio.cpp distcc[3223] (dcc_build_somewhere) Warning: failed to distribute, running locally instead distcc[23383] (dcc_select_for_write) ERROR: IO timeout distcc[23383] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[23383] Warning: failed to distribute phase.cpp to 10.0.20.122:3760, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c tdt.cpp distcc[6178] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c sharing.cpp distcc[26249] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c genepi.cpp distcc[22241] (dcc_build_somewhere) Warning: failed to distribute, running locally instead genepi.cpp: In function 'double C(int, double, double)': genepi.cpp:78:1: warning: no return statement in function returning non-void [-Wreturn-type] 78 | } | ^ genepi.cpp: In function 'long double pillai(int, int, int, double)': genepi.cpp:169:1: warning: no return statement in function returning non-void [-Wreturn-type] 169 | } | ^ c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c sets.cpp distcc[16887] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c perm.cpp distcc[23229] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c mh.cpp distcc[26000] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c genedrop.cpp distcc[27327] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c gxe.cpp distcc[6726] (dcc_build_somewhere) Warning: failed to distribute, running locally instead mh.cpp: In member function 'std::vector Plink::calcMantelHaenszel_ORD(std::vector&, std::vector&, std::vector&)': mh.cpp:1312:1: warning: no return statement in function returning non-void [-Wreturn-type] 1312 | } | ^ c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c merge.cpp distcc[20109] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c hotel.cpp distcc[6713] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c multiple.cpp distcc[15605] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c haploCC.cpp distcc[10845] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c haploTDT.cpp distcc[3481] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c poo.cpp distcc[4588] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c webcheck.cpp distcc[11139] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c qfam.cpp distcc[21058] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c linear.cpp distcc[29005] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c bmerge.cpp distcc[6748] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c parse.cpp distcc[15547] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c mishap.cpp c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c legacy.cpp distcc[12355] (dcc_select_for_write) ERROR: IO timeout distcc[12355] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[12355] Warning: failed to distribute mishap.cpp to 10.0.20.122:3760, running locally instead distcc[22140] (dcc_select_for_write) ERROR: IO timeout distcc[22140] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[22140] Warning: failed to distribute legacy.cpp to 10.0.20.122:3760, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c homozyg.cpp distcc[24410] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c segment.cpp distcc[21698] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c model.cpp distcc[25016] (dcc_build_somewhere) Warning: failed to distribute, running locally instead model.cpp: In member function 'double Model::buildQFAM(Individual*)': model.cpp:849:10: warning: control reaches end of non-void function [-Wreturn-type] 849 | error("Internal problem with QFAM model specification"); | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c logistic.cpp distcc[11340] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c glm.cpp distcc[18750] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c dcdflib.cpp distcc[12799] (dcc_build_somewhere) Warning: failed to distribute, running locally instead 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:6025:23: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 6025 | if(qcond) ftnstop(" SMALL, X, BIG not monotone in INVR"); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ dcdflib.cpp: In function 'double dlanor(double*)': dcdflib.cpp:6401:28: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 6401 | if(xx < 5.0e0) ftnstop(" Argument too small in DLANOR"); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ dcdflib.cpp: In function 'double dstrem(double*)': dcdflib.cpp:6782:29: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 6782 | if(*z <= 0.0e0) ftnstop("Zero or negative argument in DSTREM"); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c elf.cpp distcc[4511] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c dfam.cpp distcc[22239] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c fisher.cpp distcc[3992] (dcc_build_somewhere) Warning: failed to distribute, running locally instead fisher.cpp: In function 'void fexact(int*, int*, double*, int*, double*, double*, double*, double*, double*, int*)': fisher.cpp:261:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 261 | prterr(1, "NROW must be less than or equal to LDTABL."); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp:267:14: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 267 | prterr(2, "All elements of TABLE must be positive."); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp:272:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 272 | prterr(3, "All elements of TABLE are zero.\n" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 273 | "PRT and PRE are set to missing values."); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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:448:15: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 448 | prterr(1, "NROW must be less than or equal to LDTABL."); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp:450:15: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 450 | prterr(4, "NCOL must be at least 2"); | ^~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp:501:18: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 501 | prterr(2, "All elements of TABLE must be positive."); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp:508:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 508 | prterr(3, "All elements of TABLE are zero.\n" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 509 | "PRT and PRE are set to missing values."); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp:559:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 559 | prterr(5, "The hash table key cannot be computed because " | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 560 | "the largest key\n" | ~~~~~~~~~~~~~~~~~~~ 561 | "is larger than the largest representable int.\n" | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 562 | "The algorithm cannot proceed.\n" | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 563 | "Reduce the workspace size, or use `exact = FALSE'."); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp:750:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 750 | prterr(6, "LDKEY is too small for this problem.\n" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 751 | "Try increasing the size of the workspace."); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp: In function 'void f5xact(double*, const double*, int*, int*, int*, int*, double*, int*, int*, int*, int*, int*, int*, int*, int*)': fisher.cpp:1538:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 1538 | prterr(6, "LDKEY is too small for this problem.\n" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1539 | "Try increasing the size of the workspace."); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp:1554:16: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 1554 | prterr(7, "LDSTP is too small for this problem.\n" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1555 | "Try increasing the size of the workspace."); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp:1596:17: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 1596 | prterr(7, "LDSTP is too small for this problem.\n" | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1597 | "Try increasing the size of the workspace."); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ fisher.cpp: In function 'int iwork(int, int*, int, int)': fisher.cpp:2001:18: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 2001 | prterr(40, "Out of workspace."); | ^~~~~~~~~~~~~~~~~~~ fisher.cpp: In function 'void isort(int*, int*)': fisher.cpp:2078:18: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 2078 | prterr(20, "This should never occur."); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c linput.cpp distcc[23479] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c sockets.cpp distcc[10015] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c lookup.cpp distcc[15439] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c proxy.cpp c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c pdriver.cpp distcc[4652] (dcc_select_for_write) ERROR: IO timeout distcc[4652] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[4652] Warning: failed to distribute proxy.cpp to 10.0.20.122:3760, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c haploQTL.cpp distcc[6982] (dcc_build_somewhere) Warning: failed to distribute, running locally instead distcc[11761] (dcc_select_for_write) ERROR: IO timeout distcc[11761] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[11761] Warning: failed to distribute pdriver.cpp to 10.0.20.122:3760, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c haplohelper.cpp distcc[9868] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c haplowindow.cpp distcc[5701] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c genogroup.cpp distcc[248] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c nonfounderphasing.cpp distcc[155] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c clumpld.cpp distcc[19499] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c genoerr.cpp distcc[25684] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c em.cpp distcc[22938] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c impute.cpp distcc[20720] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c metaem.cpp distcc[13857] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c profile.cpp distcc[5726] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c nlist.cpp distcc[15254] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c whap.cpp distcc[13362] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c simul.cpp distcc[7004] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c gvar.cpp distcc[14117] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c cnv.cpp distcc[16057] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c step.cpp distcc[27122] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c greport.cpp distcc[5687] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c flip.cpp distcc[29749] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c qualscores.cpp distcc[7088] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c cnvqt.cpp c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c cfamily.cpp c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c setscreen.cpp distcc[7304] (dcc_select_for_write) ERROR: IO timeout distcc[7304] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[7304] Warning: failed to distribute cnvqt.cpp to 10.0.20.122:3760, running locally instead distcc[22102] (dcc_select_for_write) ERROR: IO timeout distcc[22102] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[22102] Warning: failed to distribute cfamily.cpp to 10.0.20.122:3760, running locally instead distcc[16979] (dcc_select_for_write) ERROR: IO timeout distcc[16979] ERROR: timeout while connecting to 10.0.20.122:3760 distcc[16979] Warning: failed to distribute setscreen.cpp to 10.0.20.122:3760, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c idhelp.cpp distcc[4767] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c tag.cpp distcc[10271] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c hapglm.cpp distcc[25929] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c lookup2.cpp distcc[24051] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c blox.cpp distcc[15495] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c zed.cpp distcc[7238] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c dosage.cpp distcc[6947] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c annot.cpp distcc[20796] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c metaanal.cpp distcc[5059] (dcc_build_somewhere) Warning: failed to distribute, running locally instead c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c r.cpp distcc[20478] (dcc_build_somewhere) Warning: failed to distribute, running locally instead In file included from Rconnection.h:42, from r.cpp:29: Rsrv.h:324:2: error: #error "Cannot determine endianness. Make sure config.h is included or __{BIG|LITTLE}_ENDIAN__ is defined ." 324 | #error "Cannot determine endianness. Make sure config.h is included or __{BIG|LITTLE}_ENDIAN__ is defined ." | ^~~~~ c++ -O2 -I/usr/pkg/include -I/usr/include -Dfopen64=fopen -I. -DUNIX -static -DWITH_R_PLUGINS -DWITH_ZLIB -DWITH_LAPACK -c Rconnection.cpp distcc[26512] (dcc_build_somewhere) Warning: failed to distribute, running locally instead In file included from Rconnection.h:42, from Rconnection.cpp:30: Rsrv.h:324:2: error: #error "Cannot determine endianness. Make sure config.h is included or __{BIG|LITTLE}_ENDIAN__ is defined ." 324 | #error "Cannot determine endianness. Make sure config.h is included or __{BIG|LITTLE}_ENDIAN__ is defined ." | ^~~~~ In file included from Rconnection.cpp:30: Rconnection.h: In constructor 'Rsymbol::Rsymbol(Rmessage*)': Rconnection.h:203:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 203 | { name=""; fix_content(); } | ^~ Rconnection.h: In constructor 'Rsymbol::Rsymbol(unsigned int*, Rmessage*)': Rconnection.h:206:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 206 | { name=""; fix_content(); } | ^~ Rconnection.cpp: At global scope: Rconnection.cpp:56:20: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 56 | static char *myID= "Rsrv0103QAP1"; /* this client supports up to protocol version 0103 */ | ^~~~~~~~~~~~~~ distcc[26512] ERROR: compile Rconnection.cpp on localhost failed gmake: *** [Makefile:159: Rconnection.o] Error 1 gmake: *** Waiting for unfinished jobs.... In file included from r.cpp:29: Rconnection.h: In constructor 'Rsymbol::Rsymbol(Rmessage*)': Rconnection.h:203:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 203 | { name=""; fix_content(); } | ^~ Rconnection.h: In constructor 'Rsymbol::Rsymbol(unsigned int*, Rmessage*)': Rconnection.h:206:12: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 206 | { name=""; fix_content(); } | ^~ distcc[20478] ERROR: compile r.cpp on localhost failed gmake: *** [Makefile:159: r.o] Error 1 *** Error code 2 Stop. make[1]: stopped in /usr/pkgsrc/biology/plink *** Error code 1 Stop. make: stopped in /usr/pkgsrc/biology/plink