foldmason-4-dd3c235
checks.x86_64-linux.pkgs-foldmason
· build #79
· raw
1Using checkPhaseThreadLimitHook
unpackPhase
2unpacking source archive /nix/store/m71fhyklgn4wx3w8li6pqas83bi0whf7-source3source root is sourcepatchPhase
4patching script interpreter paths in lib/foldseek/lib/mmseqs/cmake/xxdi.pl5lib/foldseek/lib/mmseqs/cmake/xxdi.pl: interpreter directive changed from "#!/usr/bin/env perl" to "/nix/store/w03i01kiakf4wz7jbp1l59c0bhb3pjca-perl-5.42.3/bin/perl"configurePhase
6cmake flags: -DCMAKE_FIND_USE_SYSTEM_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_BUILD_TYPE=Release -DBUILD_TESTING=OFF -DCMAKE_INSTALL_LOCALEDIR=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/share/locale -DCMAKE_INSTALL_LIBEXECDIR=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/libexec -DCMAKE_INSTALL_LIBDIR=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/lib -DCMAKE_INSTALL_DOCDIR=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/share/doc/foldseek -DCMAKE_INSTALL_INFODIR=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/share/info -DCMAKE_INSTALL_MANDIR=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/share/man -DCMAKE_INSTALL_INCLUDEDIR=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/include -DCMAKE_INSTALL_SBINDIR=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/sbin -DCMAKE_INSTALL_BINDIR=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/bin -DCMAKE_INSTALL_NAME_DIR=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/lib -DCMAKE_STRIP=/nix/store/z4c6k0mrlkwl3s4w9ysxc8vq1wylm3ms-gcc-wrapper-15.3.0/bin/strip -DCMAKE_RANLIB=/nix/store/z4c6k0mrlkwl3s4w9ysxc8vq1wylm3ms-gcc-wrapper-15.3.0/bin/ranlib -DCMAKE_AR=/nix/store/z4c6k0mrlkwl3s4w9ysxc8vq1wylm3ms-gcc-wrapper-15.3.0/bin/ar -DCMAKE_C_COMPILER=gcc -DCMAKE_CXX_COMPILER=g++ -DCMAKE_INSTALL_PREFIX=/nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235 -DCMAKE_POLICY_VERSION_MINIMUM=3.5 -DHAVE_AVX2=17-- The C compiler identification is GNU 15.3.08-- The CXX compiler identification is GNU 15.3.09-- Detecting C compiler ABI info10-- Detecting C compiler ABI info - done11-- Check for working C compiler: /nix/store/z4c6k0mrlkwl3s4w9ysxc8vq1wylm3ms-gcc-wrapper-15.3.0/bin/gcc - skipped12-- Detecting C compile features13-- Detecting C compile features - done14-- Detecting CXX compiler ABI info15-- Detecting CXX compiler ABI info - done16-- Check for working CXX compiler: /nix/store/z4c6k0mrlkwl3s4w9ysxc8vq1wylm3ms-gcc-wrapper-15.3.0/bin/g++ - skipped17-- Detecting CXX compile features18-- Detecting CXX compile features - done19-- Source Directory: /build/source/lib/foldseek/lib/mmseqs20-- Project Directory: /build/source/lib/foldseek/lib/mmseqs21-- Compiler is GNU 22-- ZSTD VERSION 1.3.823-- xxd not found, using xxdi.pl instead24-- ShellCheck disabled25-- Performing Test HAVE_POSIX_FADVISE26-- Performing Test HAVE_POSIX_FADVISE - Success27-- Performing Test HAVE_POSIX_MADVISE28-- Performing Test HAVE_POSIX_MADVISE - Success29-- Performing Test ATOMIC_NATIVE30-- Performing Test ATOMIC_NATIVE - Failed31-- Performing Test ATOMIC_WITH_LIB32-- Performing Test ATOMIC_WITH_LIB - Success33-- Found Atomic: -latomic34-- IPS4O sorting works35-- Found ZLIB36-- Performing Test HAVE_ZLIB_CHECK37-- Performing Test HAVE_ZLIB_CHECK - Success38-- ZLIB works39-- Found BZLIB40-- Performing Test HAVE_BZLIB_CHECK41-- Performing Test HAVE_BZLIB_CHECK - Success42-- BZLIB works43-- Found OpenMP44-- xxd not found, using xxdi.pl instead45-- ShellCheck not found46-- Rust Target: x86_64-unknown-linux-gnu47-- Determining required link libraries for target x86_64-unknown-linux-gnu48-- Required static libs for target x86_64-unknown-linux-gnu: gcc_s;util;rt;pthread;m;dl;c49-- Required link flags for target x86_64-unknown-linux-gnu: 50-- Found Rust: /nix/store/vy0xilifxb02fwal0wihsrwc8s69rlyk-rustc-wrapper-1.98.1/bin/rustc (found version "1.98.1")51-- Using Corrosion as a subdirectory52-- Rust Feature: simd_avx253-- xxd not found, using xxdi.pl instead54-- ShellCheck not found55-- Configuring done (3.0s)56-- Generating done (0.1s)57CMake Warning (unused-cli):58 Manually-specified variables were not used by the project:5960 BUILD_TESTING61 CMAKE_EXPORT_NO_PACKAGE_REGISTRY62 CMAKE_INSTALL_BINDIR63 CMAKE_INSTALL_DOCDIR64 CMAKE_INSTALL_INCLUDEDIR65 CMAKE_INSTALL_INFODIR66 CMAKE_INSTALL_LIBEXECDIR67 CMAKE_INSTALL_LOCALEDIR68 CMAKE_INSTALL_MANDIR69 CMAKE_INSTALL_SBINDIR707172-- Build files have been written to: /build/source/build73cmake: enabled parallel building74cmake: enabled parallel installingbuildPhase
75build flags: -j48 SHELL=/nix/store/svx59425zxp552p2b8gm11qj5r09b56i-bash-5.3p15/bin/bash76[ 0%] Building C object lib/foldseek/lib/mmseqs/lib/tinyexpr/CMakeFiles/tinyexpr.dir/tinyexpr.c.o77[ 0%] Building CXX object lib/foldseek/lib/mmseqs/lib/tantan/CMakeFiles/tantan.dir/tantan.cpp.o78[ 1%] Generating ../generated/easystructuresearch.sh.h79[ 1%] Generating ../generated/structureiterativesearch.sh.h80[ 1%] Generating ../generated/structurecluster.sh.h81[ 2%] Generating ../generated/structuresearch.sh.h82[ 2%] Building C object lib/foldseek/lib/mmseqs/lib/microtar/CMakeFiles/microtar.dir/microtar.c.o83[ 2%] Building CXX object src/version/CMakeFiles/version.dir/Version.cpp.o84[ 2%] Built target cargo-prebuild_block_aligner_c85[ 3%] Generating ../generated/structureindex.sh.h86[ 3%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/common/entropy_common.c.o87[ 4%] Building CXX object 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lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/compress/zstd_compress.c.o132[ 14%] Built target version133[ 15%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/sls_alignment_evaluer.cpp.o134[ 15%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/sls_alp_regression.cpp.o135[ 15%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/compress/zstdmt_compress.c.o136[ 15%] Generating ../generated/vendor.js.zst.h137[ 16%] Building CXX object lib/foldseek/lib/foldcomp/CMakeFiles/foldcomp.dir/src/sidechain.cpp.o138[ 16%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/compress/zstd_fast.c.o139[ 16%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/compress/zstd_double_fast.c.o140[ 16%] Generating 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outside array bounds of 'unsigned char[16]' [-Warray-bounds=]153 373 | ret->bound = s->bound;154 | ^~155In function 'new_expr',156 inlined from 'base' at /build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:372:19:157/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:88:20: note: object of size 16 allocated by 'malloc'158 88 | te_expr *ret = malloc(size);159 | ^~~~~~~~~~~~160In function 'new_expr',161 inlined from 'base' at /build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:366:19:162/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:93:15: warning: array subscript 'te_expr[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=]163 93 | ret->type = type;164 | ~~~~~~~~~~^~~~~~165/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:88:20: note: object of size 16 allocated by 'malloc'166 88 | te_expr *ret = malloc(size);167 | ^~~~~~~~~~~~168/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c: In function 'base':169/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:367:16: warning: array subscript 'te_expr[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=]170 367 | ret->value = s->value;171 | ^~172In function 'new_expr',173 inlined from 'base' at /build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:366:19:174/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:88:20: note: object of size 16 allocated by 'malloc'175 88 | te_expr *ret = malloc(size);176 | ^~~~~~~~~~~~177/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c: In function 'base':178/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:446:16: warning: array subscript 'te_expr[0]' is partly outside array bounds of 'unsigned char[16]' [-Warray-bounds=]179 446 | ret->value = NAN;180 | ^~181In function 'new_expr',182 inlined from 'base' at /build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:444:19:183/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:88:20: note: object of size 16 allocated by 'malloc'184 88 | te_expr *ret = malloc(size);185 | ^~~~~~~~~~~~186[ 21%] Generating ../generated/multimersearch.sh.h187[ 21%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/compress/zstd_opt.c.o188[ 21%] Generating ../generated/easymultimersearch.sh.h189[ 21%] Generating ../generated/multimercluster.sh.h190[ 22%] Generating ../generated/krona_prelude.html.h191[ 22%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/sls_basic.cpp.o192[ 22%] Built target microtar193[ 22%] Generating ../generated/easymultimercluster.sh.h194[ 22%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/compress/zstd_ldm.c.o195[ 22%] Building CXX object lib/foldseek/lib/foldcomp/CMakeFiles/foldcomp.dir/src/utility.cpp.o196[ 22%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/sls_alp_data.cpp.o197[ 23%] Generating ../generated/result_viz_prelude.html.zst.h198 Compiling block_aligner_c v0.4.0 (/build/source/lib/foldseek/lib/block-aligner/c)199[ 23%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/njn_ioutil.cpp.o200[ 23%] Generating ../generated/K4000.crf.h201[ 23%] Generating ../generated/easysearch.sh.h202/build/source/lib/foldseek/lib/foldcomp/src/database_writer.cpp: In function 'void free_writer(void*)':203/build/source/lib/foldseek/lib/foldcomp/src/database_writer.cpp:65:35: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 4 has type 'int64_t' {aka 'long int'} [-Wformat=]204 65 | fprintf(w->index, "%d\t%llu\t%d\n", w->entries[i].id, w->entries[i].offset, (uint32_t)w->entries[i].length);205 | ~~~^ ~~~~~~~~~~~~~~~~~~~~206 | | |207 | long long unsigned int int64_t {aka long int}208 | %lu209[ 23%] Generating ../generated/easycluster.sh.h210[ 23%] Linking C static library libtinyexpr.a211[ 23%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/decompress/huf_decompress.c.o212[ 24%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/decompress/zstd_decompress.c.o213[ 25%] Generating ../generated/easytaxonomy.sh.h214[ 25%] Generating ../generated/easyrbh.sh.h215[ 25%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/decompress/zstd_decompress_block.c.o216[ 25%] Built target tinyexpr217[ 25%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/decompress/zstd_ddict.c.o218[ 26%] Generating ../generated/blastp.sh.h219[ 26%] Generating ../generated/blastpgp.sh.h220[ 27%] Generating ../generated/map.sh.h221[ 27%] Generating ../generated/rbh.sh.h222[ 28%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/dictBuilder/cover.c.o223[ 28%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/dictBuilder/fastcover.c.o224[ 28%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/dictBuilder/divsufsort.c.o225[ 28%] Generating ../generated/linclust.sh.h226[ 29%] Generating ../generated/clustering.sh.h227[ 29%] Generating ../generated/cascaded_clustering.sh.h228[ 29%] Generating ../generated/update_clustering.sh.h229warning: `extern` declarations without an explicit ABI are deprecated230 --> ../src/ffi.rs:32:12231 |23232 | pub unsafe extern fn block_new_simple_aamatrix(match_score: i8, mismatch_score: i8) -> *mut AAMatrix {233 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`234 |235 = note: `#[warn(missing_abi)]` on by default236237warning: `extern` declarations without an explicit ABI are deprecated238 --> ../src/ffi.rs:39:12239 |24039 | pub unsafe extern fn block_set_aamatrix(matrix: *mut AAMatrix, a: u8, b: u8, score: i8) {241 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`242243warning: `extern` declarations without an explicit ABI are deprecated244 --> ../src/ffi.rs:46:12245 |24646 | pub unsafe extern fn block_free_aamatrix(matrix: *mut AAMatrix) {247 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`248249warning: `extern` declarations without an explicit ABI are deprecated250 --> ../src/ffi.rs:61:12251 |25261 | pub unsafe extern fn block_new_aaprofile(str_len: usize, block_size: usize, gap_extend: i8) -> *mut AAProfile {253 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`254255warning: `extern` declarations without an explicit ABI are deprecated256 --> ../src/ffi.rs:68:12257 |25868 | pub unsafe extern fn block_len_aaprofile(profile: *const AAProfile) -> usize {259 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`260261warning: `extern` declarations without an explicit ABI are deprecated262 --> ../src/ffi.rs:76:12263 |26476 | pub unsafe extern fn block_clear_aaprofile(profile: *mut AAProfile, str_len: usize) {265 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`266267warning: `extern` declarations without an explicit ABI are deprecated268 --> ../src/ffi.rs:86:12269 |27086 | pub unsafe extern fn block_set_aaprofile(profile: *mut AAProfile, i: usize, b: u8, score: i8) {271 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`272273warning: `extern` declarations without an explicit ABI are deprecated274 --> ../src/ffi.rs:97:12275 |27697 | pub unsafe extern fn block_set_gap_open_C_aaprofile(profile: *mut AAProfile, i: usize, gap: i8) {277 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`278279warning: `extern` declarations without an explicit ABI are deprecated280 --> ../src/ffi.rs:108:12281 |282108 | pub unsafe extern fn block_set_gap_close_C_aaprofile(profile: *mut AAProfile, i: usize, gap: i8) {283 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`284285warning: `extern` declarations without an explicit ABI are deprecated286 --> ../src/ffi.rs:119:12287 |288119 | pub unsafe extern fn block_set_gap_open_R_aaprofile(profile: *mut AAProfile, i: usize, gap: i8) {289 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`290291warning: `extern` declarations without an explicit ABI are deprecated292 --> ../src/ffi.rs:126:12293 |294126 | pub unsafe extern fn block_get_aaprofile(profile: *const AAProfile, i: usize, b: u8) -> i8 {295 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`296297warning: `extern` declarations without an explicit ABI are deprecated298 --> ../src/ffi.rs:133:12299 |300133 | pub unsafe extern fn block_get_gap_extend_aaprofile(profile: *const AAProfile) -> i8 {301 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`302303warning: `extern` declarations without an explicit ABI are deprecated304 --> ../src/ffi.rs:140:12305 |306140 | pub unsafe extern fn block_free_aaprofile(profile: *mut AAProfile) {307 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`308309warning: `extern` declarations without an explicit ABI are deprecated310 --> ../src/ffi.rs:149:12311 |312149 | pub unsafe extern fn block_new_cigar(query_len: usize, reference_len: usize) -> *mut Cigar {313 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`314315warning: `extern` declarations without an explicit ABI are deprecated316 --> ../src/ffi.rs:156:12317 |318156 | pub unsafe extern fn block_get_cigar(cigar: *const Cigar, i: usize) -> OpLen {319 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`320321warning: `extern` declarations without an explicit ABI are deprecated322 --> ../src/ffi.rs:163:12323 |324163 | pub unsafe extern fn block_len_cigar(cigar: *const Cigar) -> usize {325 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`326327warning: `extern` declarations without an explicit ABI are deprecated328 --> ../src/ffi.rs:170:12329 |330170 | pub unsafe extern fn block_free_cigar(cigar: *mut Cigar) {331 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`332333warning: `extern` declarations without an explicit ABI are deprecated334 --> ../src/ffi.rs:179:12335 |336179 | pub unsafe extern fn block_new_padded_aa(len: usize, max_size: usize) -> *mut PaddedBytes {337 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`338339warning: `extern` declarations without an explicit ABI are deprecated340 --> ../src/ffi.rs:186:12341 |342186 | pub unsafe extern fn block_set_bytes_padded_aa(padded: *mut PaddedBytes, s: *const u8, len: usize, max_size: usize) {343 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`344345warning: `extern` declarations without an explicit ABI are deprecated346 --> ../src/ffi.rs:194:12347 |348194 | pub unsafe extern fn block_free_padded_aa(padded: *mut PaddedBytes) {349 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`350351warning: `extern` declarations without an explicit ABI are deprecated352 --> ../src/ffi.rs:203:12353 |354203 | pub unsafe extern fn block_new_pos_bias(len: usize, max_size: usize) -> *mut PosBias {355 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`356357warning: `extern` declarations without an explicit ABI are deprecated358 --> ../src/ffi.rs:210:12359 |360210 | pub unsafe extern fn block_set_pos_bias(bias: *mut PosBias, b: *const i16, len: usize) {361 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`362363warning: `extern` declarations without an explicit ABI are deprecated364 --> ../src/ffi.rs:218:12365 |366218 | pub unsafe extern fn block_free_pos_bias(bias: *mut PosBias) {367 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`368369warning: `extern` declarations without an explicit ABI are deprecated370 --> ../src/ffi.rs:237:20371 |372237 | pub unsafe extern fn $new_name(query_len: usize,373 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`374...375315 | / gen_functions!(376316 | | block_new_aa,377317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",378318 | | block_align_aa,379... |380332 | | AAMatrix, AAProfile, false, false381333 | | );382 | |_- in this macro invocation383 |384 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)385386warning: `extern` declarations without an explicit ABI are deprecated387 --> ../src/ffi.rs:246:20388 |389246 | pub unsafe extern fn $align_name(b: BlockHandle,390 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`391...392315 | / gen_functions!(393316 | | block_new_aa,394317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",395318 | | block_align_aa,396... |397332 | | AAMatrix, AAProfile, false, false398333 | | );399 | |_- in this macro invocation400 |401 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)402403warning: `extern` declarations without an explicit ABI are deprecated404 --> ../src/ffi.rs:259:20405 |406259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,407 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`408...409315 | / gen_functions!(410316 | | block_new_aa,411317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",412318 | | block_align_aa,413... |414332 | | AAMatrix, AAProfile, false, false415333 | | );416 | |_- in this macro invocation417 |418 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)419420warning: `extern` declarations without an explicit ABI are deprecated421 --> ../src/ffi.rs:270:20422 |423270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,424 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`425...426315 | / gen_functions!(427316 | | block_new_aa,428317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",429318 | | block_align_aa,430... |431332 | | AAMatrix, AAProfile, false, false432333 | | );433 | |_- in this macro invocation434 |435 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)436437warning: `extern` declarations without an explicit ABI are deprecated438 --> ../src/ffi.rs:288:20439 |440288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {441 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`442...443315 | / gen_functions!(444316 | | block_new_aa,445317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",446318 | | block_align_aa,447... |448332 | | AAMatrix, AAProfile, false, false449333 | | );450 | |_- in this macro invocation451 |452 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)453454warning: `extern` declarations without an explicit ABI are deprecated455 --> ../src/ffi.rs:295:20456 |457295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {458 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`459...460315 | / gen_functions!(461316 | | block_new_aa,462317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",463318 | | block_align_aa,464... |465332 | | AAMatrix, AAProfile, false, false466333 | | );467 | |_- in this macro invocation468 |469 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)470471warning: `extern` declarations without an explicit ABI are deprecated472 --> ../src/ffi.rs:302:20473 |474302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...475 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`476...477315 | / gen_functions!(478316 | | block_new_aa,479317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",480318 | | block_align_aa,481... |482332 | | AAMatrix, AAProfile, false, false483333 | | );484 | |_- in this macro invocation485 |486 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)487488warning: `extern` declarations without an explicit ABI are deprecated489 --> ../src/ffi.rs:309:20490 |491309 | pub unsafe extern fn $free_name(b: BlockHandle) {492 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`493...494315 | / gen_functions!(495316 | | block_new_aa,496317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",497318 | | block_align_aa,498... |499332 | | AAMatrix, AAProfile, false, false500333 | | );501 | |_- in this macro invocation502 |503 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)504505warning: `extern` declarations without an explicit ABI are deprecated506 --> ../src/ffi.rs:237:20507 |508237 | pub unsafe extern fn $new_name(query_len: usize,509 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`510...511335 | / gen_functions!(512336 | | block_new_aa_xdrop,513337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",514338 | | block_align_aa_xdrop,515... |516352 | | AAMatrix, AAProfile, false, true517353 | | );518 | |_- in this macro invocation519 |520 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)521522warning: `extern` declarations without an explicit ABI are deprecated523 --> ../src/ffi.rs:246:20524 |525246 | pub unsafe extern fn $align_name(b: BlockHandle,526 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`527...528335 | / gen_functions!(529336 | | block_new_aa_xdrop,530337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",531338 | | block_align_aa_xdrop,532... |533352 | | AAMatrix, AAProfile, false, true534353 | | );535 | |_- in this macro invocation536 |537 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)538539warning: `extern` declarations without an explicit ABI are deprecated540 --> ../src/ffi.rs:259:20541 |542259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,543 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`544...545335 | / gen_functions!(546336 | | block_new_aa_xdrop,547337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",548338 | | block_align_aa_xdrop,549... |550352 | | AAMatrix, AAProfile, false, true551353 | | );552 | |_- in this macro invocation553 |554 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)555556warning: `extern` declarations without an explicit ABI are deprecated557 --> ../src/ffi.rs:270:20558 |559270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,560 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`561...562335 | / gen_functions!(563336 | | block_new_aa_xdrop,564337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",565338 | | block_align_aa_xdrop,566... |567352 | | AAMatrix, AAProfile, false, true568353 | | );569 | |_- in this macro invocation570 |571 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)572573warning: `extern` declarations without an explicit ABI are deprecated574 --> ../src/ffi.rs:288:20575 |576288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {577 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`578...579335 | / gen_functions!(580336 | | block_new_aa_xdrop,581337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",582338 | | block_align_aa_xdrop,583... |584352 | | AAMatrix, AAProfile, false, true585353 | | );586 | |_- in this macro invocation587 |588 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)589590warning: `extern` declarations without an explicit ABI are deprecated591 --> ../src/ffi.rs:295:20592 |593295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {594 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`595...596335 | / gen_functions!(597336 | | block_new_aa_xdrop,598337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",599338 | | block_align_aa_xdrop,600... |601352 | | AAMatrix, AAProfile, false, true602353 | | );603 | |_- in this macro invocation604 |605 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)606607warning: `extern` declarations without an explicit ABI are deprecated608 --> ../src/ffi.rs:302:20609 |610302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...611 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`612...613335 | / gen_functions!(614336 | | block_new_aa_xdrop,615337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",616338 | | block_align_aa_xdrop,617... |618352 | | AAMatrix, AAProfile, false, true619353 | | );620 | |_- in this macro invocation621 |622 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)623624warning: `extern` declarations without an explicit ABI are deprecated625 --> ../src/ffi.rs:309:20626 |627309 | pub unsafe extern fn $free_name(b: BlockHandle) {628 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`629...630335 | / gen_functions!(631336 | | block_new_aa_xdrop,632337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",633338 | | block_align_aa_xdrop,634... |635352 | | AAMatrix, AAProfile, false, true636353 | | );637 | |_- in this macro invocation638 |639 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)640641warning: `extern` declarations without an explicit ABI are deprecated642 --> ../src/ffi.rs:237:20643 |644237 | pub unsafe extern fn $new_name(query_len: usize,645 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`646...647355 | / gen_functions!(648356 | | block_new_aa_trace,649357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",650358 | | block_align_aa_trace,651... |652372 | | AAMatrix, AAProfile, true, false653373 | | );654 | |_- in this macro invocation655 |656 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)657658warning: `extern` declarations without an explicit ABI are deprecated659 --> ../src/ffi.rs:246:20660 |661246 | pub unsafe extern fn $align_name(b: BlockHandle,662 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`663...664355 | / gen_functions!(665356 | | block_new_aa_trace,666357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",667358 | | block_align_aa_trace,668... |669372 | | AAMatrix, AAProfile, true, false670373 | | );671 | |_- in this macro invocation672 |673 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)674675warning: `extern` declarations without an explicit ABI are deprecated676 --> ../src/ffi.rs:259:20677 |678259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,679 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`680...681355 | / gen_functions!(682356 | | block_new_aa_trace,683357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",684358 | | block_align_aa_trace,685... |686372 | | AAMatrix, AAProfile, true, false687373 | | );688 | |_- in this macro invocation689 |690 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)691692warning: `extern` declarations without an explicit ABI are deprecated693 --> ../src/ffi.rs:270:20694 |695270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,696 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`697...698355 | / gen_functions!(699356 | | block_new_aa_trace,700357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",701358 | | block_align_aa_trace,702... |703372 | | AAMatrix, AAProfile, true, false704373 | | );705 | |_- in this macro invocation706 |707 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)708709warning: `extern` declarations without an explicit ABI are deprecated710 --> ../src/ffi.rs:288:20711 |712288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {713 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`714...715355 | / gen_functions!(716356 | | block_new_aa_trace,717357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",718358 | | block_align_aa_trace,719... |720372 | | AAMatrix, AAProfile, true, false721373 | | );722 | |_- in this macro invocation723 |724 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)725726warning: `extern` declarations without an explicit ABI are deprecated727 --> ../src/ffi.rs:295:20728 |729295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {730 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`731...732355 | / gen_functions!(733356 | | block_new_aa_trace,734357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",735358 | | block_align_aa_trace,736... |737372 | | AAMatrix, AAProfile, true, false738373 | | );739 | |_- in this macro invocation740 |741 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)742743warning: `extern` declarations without an explicit ABI are deprecated744 --> ../src/ffi.rs:302:20745 |746302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...747 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`748...749355 | / gen_functions!(750356 | | block_new_aa_trace,751357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",752358 | | block_align_aa_trace,753... |754372 | | AAMatrix, AAProfile, true, false755373 | | );756 | |_- in this macro invocation757 |758 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)759760warning: `extern` declarations without an explicit ABI are deprecated761 --> ../src/ffi.rs:309:20762 |763309 | pub unsafe extern fn $free_name(b: BlockHandle) {764 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`765...766355 | / gen_functions!(767356 | | block_new_aa_trace,768357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",769358 | | block_align_aa_trace,770... |771372 | | AAMatrix, AAProfile, true, false772373 | | );773 | |_- in this macro invocation774 |775 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)776777warning: `extern` declarations without an explicit ABI are deprecated778 --> ../src/ffi.rs:237:20779 |780237 | pub unsafe extern fn $new_name(query_len: usize,781 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`782...783375 | / gen_functions!(784376 | | block_new_aa_trace_xdrop,785377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",786378 | | block_align_aa_trace_xdrop,787... |788392 | | AAMatrix, AAProfile, true, true789393 | | );790 | |_- in this macro invocation791 |792 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)793794warning: `extern` declarations without an explicit ABI are deprecated795 --> ../src/ffi.rs:246:20796 |797246 | pub unsafe extern fn $align_name(b: BlockHandle,798 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`799...800375 | / gen_functions!(801376 | | block_new_aa_trace_xdrop,802377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",803378 | | block_align_aa_trace_xdrop,804... |805392 | | AAMatrix, AAProfile, true, true806393 | | );807 | |_- in this macro invocation808 |809 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)810811warning: `extern` declarations without an explicit ABI are deprecated812 --> ../src/ffi.rs:259:20813 |814259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,815 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`816...817375 | / gen_functions!(818376 | | block_new_aa_trace_xdrop,819377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",820378 | | block_align_aa_trace_xdrop,821... |822392 | | AAMatrix, AAProfile, true, true823393 | | );824 | |_- in this macro invocation825 |826 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)827828warning: `extern` declarations without an explicit ABI are deprecated829 --> ../src/ffi.rs:270:20830 |831270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,832 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`833...834375 | / gen_functions!(835376 | | block_new_aa_trace_xdrop,836377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",837378 | | block_align_aa_trace_xdrop,838... |839392 | | AAMatrix, AAProfile, true, true840393 | | );841 | |_- in this macro invocation842 |843 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)844845warning: `extern` declarations without an explicit ABI are deprecated846 --> ../src/ffi.rs:288:20847 |848288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {849 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`850...851375 | / gen_functions!(852376 | | block_new_aa_trace_xdrop,853377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",854378 | | block_align_aa_trace_xdrop,855... |856392 | | AAMatrix, AAProfile, true, true857393 | | );858 | |_- in this macro invocation859 |860 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)861862warning: `extern` declarations without an explicit ABI are deprecated863 --> ../src/ffi.rs:295:20864 |865295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {866 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`867...868375 | / gen_functions!(869376 | | block_new_aa_trace_xdrop,870377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",871378 | | block_align_aa_trace_xdrop,872... |873392 | | AAMatrix, AAProfile, true, true874393 | | );875 | |_- in this macro invocation876 |877 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)878879warning: `extern` declarations without an explicit ABI are deprecated880 --> ../src/ffi.rs:302:20881 |882302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...883 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`884...885375 | / gen_functions!(886376 | | block_new_aa_trace_xdrop,887377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",888378 | | block_align_aa_trace_xdrop,889... |890392 | | AAMatrix, AAProfile, true, true891393 | | );892 | |_- in this macro invocation893 |894 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)895896warning: `extern` declarations without an explicit ABI are deprecated897 --> ../src/ffi.rs:309:20898 |899309 | pub unsafe extern fn $free_name(b: BlockHandle) {900 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`901...902375 | / gen_functions!(903376 | | block_new_aa_trace_xdrop,904377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",905378 | | block_align_aa_trace_xdrop,906... |907392 | | AAMatrix, AAProfile, true, true908393 | | );909 | |_- in this macro invocation910 |911 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)912913[ 29%] Generating ../generated/searchtargetprofile.sh.h914[ 29%] Generating ../generated/createindex.sh.h915[ 29%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/dictBuilder/zdict.c.o916[ 29%] Generating ../generated/createtaxdb.sh.h917[ 29%] Generating ../generated/translated_search.sh.h918[ 30%] Generating ../generated/taxpercontig.sh.h919[ 31%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/deprecated/zbuff_common.c.o920[ 31%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/deprecated/zbuff_compress.c.o921[ 31%] Generating ../generated/multihitdb.sh.h922[ 31%] Generating ../generated/multihitsearch.sh.h923[ 31%] Generating ../generated/enrich.sh.h924[ 31%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/deprecated/zbuff_decompress.c.o925[ 31%] Generating ../generated/blastn.sh.h926[ 31%] Generating ../generated/searchslicedtargetprofile.sh.h927[ 31%] Generating ../generated/taxonomy.sh.h928[ 32%] Generating ../generated/databases.sh.h929[ 32%] Generating ../generated/linsearch.sh.h930[ 32%] Generating ../generated/pickconsensusrep.sh.h931[ 33%] Generating ../generated/nucleotide_clustering.sh.h932[ 33%] Generating ../generated/tsv2exprofiledb.sh.h933[ 33%] Generating ../generated/iterativepp.sh.h934[ 33%] Built target local-generated935[ 33%] Built target foldmason-generated936[ 33%] Built target ksw2937[ 34%] Linking CXX static library libtantan.a938[ 34%] Built target tantan939[ 34%] Built target alp940warning: `block_aligner_c` (lib) generated 55 warnings (run `cargo fix --lib -p block_aligner_c` to apply 55 suggestions)941 Finished `release` profile [optimized] target(s) in 10.77s942Copying byproducts `libblock_aligner_c.a` to /build/source/build/lib/foldseek943[ 34%] Built target _cargo-build_block_aligner_c944[ 34%] Built target cargo-build_block_aligner_c945[ 34%] Built target generated946[ 34%] Linking CXX static library libfoldcomp.a947[ 34%] Built target foldcomp948[ 35%] Building CXX object lib/foldseek/src/strucclustutils/CMakeFiles/gemmiwrapper.dir/GemmiWrapper.cpp.o949[ 35%] Linking C static library libzstd.a950[ 35%] Built target libzstd_static951[ 36%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/Alignment.cpp.o952[ 36%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/CompressedA3M.cpp.o953[ 36%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/MultipleAlignment.cpp.o954[ 37%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/Matcher.cpp.o955[ 37%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/MsaFilter.cpp.o956[ 37%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/Main.cpp.o957[ 38%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/StripedSmithWaterman.cpp.o958[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/clustering/Main.cpp.o959[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/rescorediagonal.cpp.o960[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/PSSMCalculator.cpp.o961[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/clustering/Clustering.cpp.o962[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/BandedNucleotideAligner.cpp.o963[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/Fwbw.cpp.o964[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/clustering/AlignmentSymmetry.cpp.o965[ 39%] Building CXX object 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lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/util/swapresults.cpp.o1099[ 76%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/util/transitivealign.cpp.o1100/build/source/lib/foldseek/lib/mmseqs/src/util/result2flat.cpp: In function 'int result2flat(int, const char**, const Command&)':1101/build/source/lib/foldseek/lib/mmseqs/src/util/result2flat.cpp:65:37: warning: ignoring return value of 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size_type std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::size() const [with _CharT = char; _Traits = std::char_traits<char>; _Alloc = std::allocator<char>; size_type = long unsigned int]', declared with attribute 'nodiscard' [-Wunused-result]1102 65 | dbKeyBuffer.size();1103 | ~~~~~~~~~~~~~~~~^~1104In file included from /nix/store/8sjgd7q3mdks1rb7rbcv0sallhvrhai5-gcc-15.3.0/include/c++/15.3.0/string:56,1105 from /build/source/lib/foldseek/lib/mmseqs/src/commons/Parameters.h:7,1106 from 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CXX static library libfoldseek-framework.a1192[ 96%] Built target foldseek-framework1193[ 96%] Building CXX object src/CMakeFiles/foldmason.dir/commons/FMStructureSmithWaterman.cpp.o1194[ 97%] Building CXX object src/CMakeFiles/foldmason.dir/commons/newick.cpp.o1195[ 97%] Building CXX object src/CMakeFiles/foldmason.dir/commons/MSA.cpp.o1196[ 98%] Building CXX object src/CMakeFiles/foldmason.dir/strucclustutils/msa2lddt.cpp.o1197[100%] Building CXX object src/CMakeFiles/foldmason.dir/commons/FoldmasonParameters.cpp.o1198[100%] Building CXX object src/CMakeFiles/foldmason.dir/strucclustutils/structuremsa.cpp.o1199[100%] Building CXX object src/CMakeFiles/foldmason.dir/commons/SimpleGotoh.cpp.o1200[100%] Building CXX object src/CMakeFiles/foldmason.dir/strucclustutils/refinemsa.cpp.o1201[100%] Building CXX object src/CMakeFiles/foldmason.dir/workflow/EasyMSA.cpp.o1202[100%] Building CXX object src/CMakeFiles/foldmason.dir/foldmason.cpp.o1203/build/source/src/strucclustutils/structuremsa.cpp: In function 'Matcher::result_t pairwiseAlignment(unsigned int, Sequence*, Sequence*, Sequence*, Sequence*, int, int, SubstitutionMatrix*, SubstitutionMatrix*, int, float**)':1204/build/source/src/strucclustutils/structuremsa.cpp:177:65: warning: argument 1 range [18446744073709551615, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=]1205 177 | short **target_profile_scores_aa = new short * [alphabetSize];1206 | ^1207In file included from /nix/store/8sjgd7q3mdks1rb7rbcv0sallhvrhai5-gcc-15.3.0/include/c++/15.3.0/bits/new_allocator.h:34,1208 from /nix/store/8sjgd7q3mdks1rb7rbcv0sallhvrhai5-gcc-15.3.0/include/c++/15.3.0/x86_64-unknown-linux-gnu/bits/c++allocator.h:33,1209 from /nix/store/8sjgd7q3mdks1rb7rbcv0sallhvrhai5-gcc-15.3.0/include/c++/15.3.0/bits/allocator.h:46,1210 from /nix/store/8sjgd7q3mdks1rb7rbcv0sallhvrhai5-gcc-15.3.0/include/c++/15.3.0/vector:65,1211 from /build/source/lib/foldseek/lib/mmseqs/src/commons/DBReader.h:11,1212 from /build/source/lib/foldseek/lib/mmseqs/src/commons/IndexReader.h:4,1213 from /build/source/lib/foldseek/lib/mmseqs/src/alignment/Alignment.h:4,1214 from /build/source/src/strucclustutils/structuremsa.cpp:1:1215/nix/store/8sjgd7q3mdks1rb7rbcv0sallhvrhai5-gcc-15.3.0/include/c++/15.3.0/new:140:26: note: in a call to allocation function 'void* operator new [](std::size_t)' declared here1216 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t)1217 | ^~~~~~~~1218/build/source/src/strucclustutils/structuremsa.cpp:178:66: warning: argument 1 range [18446744073709551615, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=]1219 178 | short **target_profile_scores_3di = new short * [alphabetSize];1220 | ^1221/nix/store/8sjgd7q3mdks1rb7rbcv0sallhvrhai5-gcc-15.3.0/include/c++/15.3.0/new:140:26: note: in a call to allocation function 'void* operator new [](std::size_t)' declared here1222 140 | _GLIBCXX_NODISCARD void* operator new[](std::size_t)1223 | ^~~~~~~~1224In file included from /nix/store/lbjwxax9n0457lgd83rqwpd1l9lgfl7r-glibc-2.42-84-dev/include/string.h:548,1225 from /nix/store/8sjgd7q3mdks1rb7rbcv0sallhvrhai5-gcc-15.3.0/include/c++/15.3.0/cstring:48,1226 from /build/source/lib/foldseek/lib/mmseqs/src/commons/MultiParam.h:10,1227 from /build/source/lib/foldseek/lib/mmseqs/src/commons/Parameters.h:16,1228 from /build/source/lib/foldseek/lib/mmseqs/src/commons/Sequence.h:10,1229 from /build/source/lib/foldseek/lib/mmseqs/src/commons/DBReader.h:13:1230In function 'void* memset(void*, int, size_t)',1231 inlined from '_Z12structuremsaiPPKcRK7Commandb._omp_fn.0' at /build/source/src/strucclustutils/structuremsa.cpp:1952:27:1232/nix/store/lbjwxax9n0457lgd83rqwpd1l9lgfl7r-glibc-2.42-84-dev/include/bits/string_fortified.h:59:33: warning: 'void* __builtin_memset(void*, int, long unsigned int)' specified bound between 18446744065119617024 and 18446744073709551612 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=]1233 59 | return __builtin___memset_chk (__dest, __ch, __len,1234 | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~1235 60 | __glibc_objsize0 (__dest));1236 | ~~~~~~~~~~~~~~~~~~~~~~~~~~1237In function 'void* memset(void*, int, size_t)',1238 inlined from '_Z12structuremsaiPPKcRK7Commandb._omp_fn.0' at /build/source/src/strucclustutils/structuremsa.cpp:1953:27:1239/nix/store/lbjwxax9n0457lgd83rqwpd1l9lgfl7r-glibc-2.42-84-dev/include/bits/string_fortified.h:59:33: warning: 'void* __builtin_memset(void*, int, long unsigned int)' specified bound between 18446744065119617024 and 18446744073709551612 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=]1240 59 | return __builtin___memset_chk (__dest, __ch, __len,1241 | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~1242 60 | __glibc_objsize0 (__dest));1243 | ~~~~~~~~~~~~~~~~~~~~~~~~~~1244[100%] Linking CXX executable foldmason1245[100%] Built target foldmason1246buildPhase completed in 2 minutes 15 secondsinstallPhase
1247install flags: -j48 SHELL=/nix/store/svx59425zxp552p2b8gm11qj5r09b56i-bash-5.3p15/bin/bash install1248[ 0%] Built target cargo-prebuild_block_aligner_c1249[ 1%] Built target foldmason-generated1250[ 2%] Built target version1251[ 2%] Built target tinyexpr1252[ 13%] Built target generated1253[ 17%] Built target microtar1254[ 19%] Built target local-generated1255[ 20%] Built target ksw21256[ 20%] Built target tantan1257[ 27%] Built target libzstd_static1258[ 30%] Built target foldcomp1259[ 34%] Built target alp1260warning: `extern` declarations without an explicit ABI are deprecated1261 --> ../src/ffi.rs:32:121262 |126332 | pub unsafe extern fn block_new_simple_aamatrix(match_score: i8, mismatch_score: i8) -> *mut AAMatrix {1264 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1265 |1266 = note: `#[warn(missing_abi)]` on by default12671268warning: `extern` declarations without an explicit ABI are deprecated1269 --> ../src/ffi.rs:39:121270 |127139 | pub unsafe extern fn block_set_aamatrix(matrix: *mut AAMatrix, a: u8, b: u8, score: i8) {1272 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`12731274warning: `extern` declarations without an explicit ABI are deprecated1275 --> ../src/ffi.rs:46:121276 |127746 | pub unsafe extern fn block_free_aamatrix(matrix: *mut AAMatrix) {1278 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`12791280warning: `extern` declarations without an explicit ABI are deprecated1281 --> ../src/ffi.rs:61:121282 |128361 | pub unsafe extern fn block_new_aaprofile(str_len: usize, block_size: usize, gap_extend: i8) -> *mut AAProfile {1284 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`12851286warning: `extern` declarations without an explicit ABI are deprecated1287 --> ../src/ffi.rs:68:121288 |128968 | pub unsafe extern fn block_len_aaprofile(profile: *const AAProfile) -> usize {1290 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`12911292warning: `extern` declarations without an explicit ABI are deprecated1293 --> ../src/ffi.rs:76:121294 |129576 | pub unsafe extern fn block_clear_aaprofile(profile: *mut AAProfile, str_len: usize) {1296 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`12971298warning: `extern` declarations without an explicit ABI are deprecated1299 --> ../src/ffi.rs:86:121300 |130186 | pub unsafe extern fn block_set_aaprofile(profile: *mut AAProfile, i: usize, b: u8, score: i8) {1302 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13031304warning: `extern` declarations without an explicit ABI are deprecated1305 --> ../src/ffi.rs:97:121306 |130797 | pub unsafe extern fn block_set_gap_open_C_aaprofile(profile: *mut AAProfile, i: usize, gap: i8) {1308 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13091310warning: `extern` declarations without an explicit ABI are deprecated1311 --> ../src/ffi.rs:108:121312 |1313108 | pub unsafe extern fn block_set_gap_close_C_aaprofile(profile: *mut AAProfile, i: usize, gap: i8) {1314 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13151316warning: `extern` declarations without an explicit ABI are deprecated1317 --> ../src/ffi.rs:119:121318 |1319119 | pub unsafe extern fn block_set_gap_open_R_aaprofile(profile: *mut AAProfile, i: usize, gap: i8) {1320 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13211322warning: `extern` declarations without an explicit ABI are deprecated1323 --> ../src/ffi.rs:126:121324 |1325126 | pub unsafe extern fn block_get_aaprofile(profile: *const AAProfile, i: usize, b: u8) -> i8 {1326 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13271328warning: `extern` declarations without an explicit ABI are deprecated1329 --> ../src/ffi.rs:133:121330 |1331133 | pub unsafe extern fn block_get_gap_extend_aaprofile(profile: *const AAProfile) -> i8 {1332 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13331334warning: `extern` declarations without an explicit ABI are deprecated1335 --> ../src/ffi.rs:140:121336 |1337140 | pub unsafe extern fn block_free_aaprofile(profile: *mut AAProfile) {1338 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13391340warning: `extern` declarations without an explicit ABI are deprecated1341 --> ../src/ffi.rs:149:121342 |1343149 | pub unsafe extern fn block_new_cigar(query_len: usize, reference_len: usize) -> *mut Cigar {1344 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13451346warning: `extern` declarations without an explicit ABI are deprecated1347 --> ../src/ffi.rs:156:121348 |1349156 | pub unsafe extern fn block_get_cigar(cigar: *const Cigar, i: usize) -> OpLen {1350 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13511352warning: `extern` declarations without an explicit ABI are deprecated1353 --> ../src/ffi.rs:163:121354 |1355163 | pub unsafe extern fn block_len_cigar(cigar: *const Cigar) -> usize {1356 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13571358warning: `extern` declarations without an explicit ABI are deprecated1359 --> ../src/ffi.rs:170:121360 |1361170 | pub unsafe extern fn block_free_cigar(cigar: *mut Cigar) {1362 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13631364warning: `extern` declarations without an explicit ABI are deprecated1365 --> ../src/ffi.rs:179:121366 |1367179 | pub unsafe extern fn block_new_padded_aa(len: usize, max_size: usize) -> *mut PaddedBytes {1368 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13691370warning: `extern` declarations without an explicit ABI are deprecated1371 --> ../src/ffi.rs:186:121372 |1373186 | pub unsafe extern fn block_set_bytes_padded_aa(padded: *mut PaddedBytes, s: *const u8, len: usize, max_size: usize) {1374 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13751376warning: `extern` declarations without an explicit ABI are deprecated1377 --> ../src/ffi.rs:194:121378 |1379194 | pub unsafe extern fn block_free_padded_aa(padded: *mut PaddedBytes) {1380 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13811382warning: `extern` declarations without an explicit ABI are deprecated1383 --> ../src/ffi.rs:203:121384 |1385203 | pub unsafe extern fn block_new_pos_bias(len: usize, max_size: usize) -> *mut PosBias {1386 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13871388warning: `extern` declarations without an explicit ABI are deprecated1389 --> ../src/ffi.rs:210:121390 |1391210 | pub unsafe extern fn block_set_pos_bias(bias: *mut PosBias, b: *const i16, len: usize) {1392 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13931394warning: `extern` declarations without an explicit ABI are deprecated1395 --> ../src/ffi.rs:218:121396 |1397218 | pub unsafe extern fn block_free_pos_bias(bias: *mut PosBias) {1398 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`13991400warning: `extern` declarations without an explicit ABI are deprecated1401 --> ../src/ffi.rs:237:201402 |1403237 | pub unsafe extern fn $new_name(query_len: usize,1404 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1405...1406315 | / gen_functions!(1407316 | | block_new_aa,1408317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",1409318 | | block_align_aa,1410... |1411332 | | AAMatrix, AAProfile, false, false1412333 | | );1413 | |_- in this macro invocation1414 |1415 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)14161417warning: `extern` declarations without an explicit ABI are deprecated1418 --> ../src/ffi.rs:246:201419 |1420246 | pub unsafe extern fn $align_name(b: BlockHandle,1421 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1422...1423315 | / gen_functions!(1424316 | | block_new_aa,1425317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",1426318 | | block_align_aa,1427... |1428332 | | AAMatrix, AAProfile, false, false1429333 | | );1430 | |_- in this macro invocation1431 |1432 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)14331434warning: `extern` declarations without an explicit ABI are deprecated1435 --> ../src/ffi.rs:259:201436 |1437259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,1438 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1439...1440315 | / gen_functions!(1441316 | | block_new_aa,1442317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",1443318 | | block_align_aa,1444... |1445332 | | AAMatrix, AAProfile, false, false1446333 | | );1447 | |_- in this macro invocation1448 |1449 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)14501451warning: `extern` declarations without an explicit ABI are deprecated1452 --> ../src/ffi.rs:270:201453 |1454270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,1455 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1456...1457315 | / gen_functions!(1458316 | | block_new_aa,1459317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",1460318 | | block_align_aa,1461... |1462332 | | AAMatrix, AAProfile, false, false1463333 | | );1464 | |_- in this macro invocation1465 |1466 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)14671468warning: `extern` declarations without an explicit ABI are deprecated1469 --> ../src/ffi.rs:288:201470 |1471288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {1472 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1473...1474315 | / gen_functions!(1475316 | | block_new_aa,1476317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",1477318 | | block_align_aa,1478... |1479332 | | AAMatrix, AAProfile, false, false1480333 | | );1481 | |_- in this macro invocation1482 |1483 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)14841485warning: `extern` declarations without an explicit ABI are deprecated1486 --> ../src/ffi.rs:295:201487 |1488295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {1489 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1490...1491315 | / gen_functions!(1492316 | | block_new_aa,1493317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",1494318 | | block_align_aa,1495... |1496332 | | AAMatrix, AAProfile, false, false1497333 | | );1498 | |_- in this macro invocation1499 |1500 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)15011502warning: `extern` declarations without an explicit ABI are deprecated1503 --> ../src/ffi.rs:302:201504 |1505302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...1506 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1507...1508315 | / gen_functions!(1509316 | | block_new_aa,1510317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",1511318 | | block_align_aa,1512... |1513332 | | AAMatrix, AAProfile, false, false1514333 | | );1515 | |_- in this macro invocation1516 |1517 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)15181519warning: `extern` declarations without an explicit ABI are deprecated1520 --> ../src/ffi.rs:309:201521 |1522309 | pub unsafe extern fn $free_name(b: BlockHandle) {1523 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1524...1525315 | / gen_functions!(1526316 | | block_new_aa,1527317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",1528318 | | block_align_aa,1529... |1530332 | | AAMatrix, AAProfile, false, false1531333 | | );1532 | |_- in this macro invocation1533 |1534 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)15351536warning: `extern` declarations without an explicit ABI are deprecated1537 --> ../src/ffi.rs:237:201538 |1539237 | pub unsafe extern fn $new_name(query_len: usize,1540 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1541...1542335 | / gen_functions!(1543336 | | block_new_aa_xdrop,1544337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",1545338 | | block_align_aa_xdrop,1546... |1547352 | | AAMatrix, AAProfile, false, true1548353 | | );1549 | |_- in this macro invocation1550 |1551 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)15521553warning: `extern` declarations without an explicit ABI are deprecated1554 --> ../src/ffi.rs:246:201555 |1556246 | pub unsafe extern fn $align_name(b: BlockHandle,1557 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1558...1559335 | / gen_functions!(1560336 | | block_new_aa_xdrop,1561337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",1562338 | | block_align_aa_xdrop,1563... |1564352 | | AAMatrix, AAProfile, false, true1565353 | | );1566 | |_- in this macro invocation1567 |1568 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)15691570warning: `extern` declarations without an explicit ABI are deprecated1571 --> ../src/ffi.rs:259:201572 |1573259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,1574 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1575...1576335 | / gen_functions!(1577336 | | block_new_aa_xdrop,1578337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",1579338 | | block_align_aa_xdrop,1580... |1581352 | | AAMatrix, AAProfile, false, true1582353 | | );1583 | |_- in this macro invocation1584 |1585 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)15861587warning: `extern` declarations without an explicit ABI are deprecated1588 --> ../src/ffi.rs:270:201589 |1590270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,1591 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1592...1593335 | / gen_functions!(1594336 | | block_new_aa_xdrop,1595337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",1596338 | | block_align_aa_xdrop,1597... |1598352 | | AAMatrix, AAProfile, false, true1599353 | | );1600 | |_- in this macro invocation1601 |1602 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)16031604warning: `extern` declarations without an explicit ABI are deprecated1605 --> ../src/ffi.rs:288:201606 |1607288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {1608 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1609...1610335 | / gen_functions!(1611336 | | block_new_aa_xdrop,1612337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",1613338 | | block_align_aa_xdrop,1614... |1615352 | | AAMatrix, AAProfile, false, true1616353 | | );1617 | |_- in this macro invocation1618 |1619 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)16201621warning: `extern` declarations without an explicit ABI are deprecated1622 --> ../src/ffi.rs:295:201623 |1624295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {1625 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1626...1627335 | / gen_functions!(1628336 | | block_new_aa_xdrop,1629337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",1630338 | | block_align_aa_xdrop,1631... |1632352 | | AAMatrix, AAProfile, false, true1633353 | | );1634 | |_- in this macro invocation1635 |1636 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)16371638warning: `extern` declarations without an explicit ABI are deprecated1639 --> ../src/ffi.rs:302:201640 |1641302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...1642 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1643...1644335 | / gen_functions!(1645336 | | block_new_aa_xdrop,1646337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",1647338 | | block_align_aa_xdrop,1648... |1649352 | | AAMatrix, AAProfile, false, true1650353 | | );1651 | |_- in this macro invocation1652 |1653 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)16541655warning: `extern` declarations without an explicit ABI are deprecated1656 --> ../src/ffi.rs:309:201657 |1658309 | pub unsafe extern fn $free_name(b: BlockHandle) {1659 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1660...1661335 | / gen_functions!(1662336 | | block_new_aa_xdrop,1663337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",1664338 | | block_align_aa_xdrop,1665... |1666352 | | AAMatrix, AAProfile, false, true1667353 | | );1668 | |_- in this macro invocation1669 |1670 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)16711672warning: `extern` declarations without an explicit ABI are deprecated1673 --> ../src/ffi.rs:237:201674 |1675237 | pub unsafe extern fn $new_name(query_len: usize,1676 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1677...1678355 | / gen_functions!(1679356 | | block_new_aa_trace,1680357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",1681358 | | block_align_aa_trace,1682... |1683372 | | AAMatrix, AAProfile, true, false1684373 | | );1685 | |_- in this macro invocation1686 |1687 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)16881689warning: `extern` declarations without an explicit ABI are deprecated1690 --> ../src/ffi.rs:246:201691 |1692246 | pub unsafe extern fn $align_name(b: BlockHandle,1693 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1694...1695355 | / gen_functions!(1696356 | | block_new_aa_trace,1697357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",1698358 | | block_align_aa_trace,1699... |1700372 | | AAMatrix, AAProfile, true, false1701373 | | );1702 | |_- in this macro invocation1703 |1704 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)17051706warning: `extern` declarations without an explicit ABI are deprecated1707 --> ../src/ffi.rs:259:201708 |1709259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,1710 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1711...1712355 | / gen_functions!(1713356 | | block_new_aa_trace,1714357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",1715358 | | block_align_aa_trace,1716... |1717372 | | AAMatrix, AAProfile, true, false1718373 | | );1719 | |_- in this macro invocation1720 |1721 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)17221723warning: `extern` declarations without an explicit ABI are deprecated1724 --> ../src/ffi.rs:270:201725 |1726270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,1727 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1728...1729355 | / gen_functions!(1730356 | | block_new_aa_trace,1731357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",1732358 | | block_align_aa_trace,1733... |1734372 | | AAMatrix, AAProfile, true, false1735373 | | );1736 | |_- in this macro invocation1737 |1738 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)17391740warning: `extern` declarations without an explicit ABI are deprecated1741 --> ../src/ffi.rs:288:201742 |1743288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {1744 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1745...1746355 | / gen_functions!(1747356 | | block_new_aa_trace,1748357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",1749358 | | block_align_aa_trace,1750... |1751372 | | AAMatrix, AAProfile, true, false1752373 | | );1753 | |_- in this macro invocation1754 |1755 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)17561757warning: `extern` declarations without an explicit ABI are deprecated1758 --> ../src/ffi.rs:295:201759 |1760295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {1761 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1762...1763355 | / gen_functions!(1764356 | | block_new_aa_trace,1765357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",1766358 | | block_align_aa_trace,1767... |1768372 | | AAMatrix, AAProfile, true, false1769373 | | );1770 | |_- in this macro invocation1771 |1772 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)17731774warning: `extern` declarations without an explicit ABI are deprecated1775 --> ../src/ffi.rs:302:201776 |1777302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...1778 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1779...1780355 | / gen_functions!(1781356 | | block_new_aa_trace,1782357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",1783358 | | block_align_aa_trace,1784... |1785372 | | AAMatrix, AAProfile, true, false1786373 | | );1787 | |_- in this macro invocation1788 |1789 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)17901791warning: `extern` declarations without an explicit ABI are deprecated1792 --> ../src/ffi.rs:309:201793 |1794309 | pub unsafe extern fn $free_name(b: BlockHandle) {1795 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1796...1797355 | / gen_functions!(1798356 | | block_new_aa_trace,1799357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",1800358 | | block_align_aa_trace,1801... |1802372 | | AAMatrix, AAProfile, true, false1803373 | | );1804 | |_- in this macro invocation1805 |1806 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)18071808warning: `extern` declarations without an explicit ABI are deprecated1809 --> ../src/ffi.rs:237:201810 |1811237 | pub unsafe extern fn $new_name(query_len: usize,1812 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1813...1814375 | / gen_functions!(1815376 | | block_new_aa_trace_xdrop,1816377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",1817378 | | block_align_aa_trace_xdrop,1818... |1819392 | | AAMatrix, AAProfile, true, true1820393 | | );1821 | |_- in this macro invocation1822 |1823 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)18241825warning: `extern` declarations without an explicit ABI are deprecated1826 --> ../src/ffi.rs:246:201827 |1828246 | pub unsafe extern fn $align_name(b: BlockHandle,1829 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1830...1831375 | / gen_functions!(1832376 | | block_new_aa_trace_xdrop,1833377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",1834378 | | block_align_aa_trace_xdrop,1835... |1836392 | | AAMatrix, AAProfile, true, true1837393 | | );1838 | |_- in this macro invocation1839 |1840 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)18411842warning: `extern` declarations without an explicit ABI are deprecated1843 --> ../src/ffi.rs:259:201844 |1845259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,1846 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1847...1848375 | / gen_functions!(1849376 | | block_new_aa_trace_xdrop,1850377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",1851378 | | block_align_aa_trace_xdrop,1852... |1853392 | | AAMatrix, AAProfile, true, true1854393 | | );1855 | |_- in this macro invocation1856 |1857 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)18581859warning: `extern` declarations without an explicit ABI are deprecated1860 --> ../src/ffi.rs:270:201861 |1862270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,1863 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1864...1865375 | / gen_functions!(1866376 | | block_new_aa_trace_xdrop,1867377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",1868378 | | block_align_aa_trace_xdrop,1869... |1870392 | | AAMatrix, AAProfile, true, true1871393 | | );1872 | |_- in this macro invocation1873 |1874 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)18751876warning: `extern` declarations without an explicit ABI are deprecated1877 --> ../src/ffi.rs:288:201878 |1879288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {1880 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1881...1882375 | / gen_functions!(1883376 | | block_new_aa_trace_xdrop,1884377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",1885378 | | block_align_aa_trace_xdrop,1886... |1887392 | | AAMatrix, AAProfile, true, true1888393 | | );1889 | |_- in this macro invocation1890 |1891 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)18921893warning: `extern` declarations without an explicit ABI are deprecated1894 --> ../src/ffi.rs:295:201895 |1896295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {1897 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1898...1899375 | / gen_functions!(1900376 | | block_new_aa_trace_xdrop,1901377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",1902378 | | block_align_aa_trace_xdrop,1903... |1904392 | | AAMatrix, AAProfile, true, true1905393 | | );1906 | |_- in this macro invocation1907 |1908 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)19091910warning: `extern` declarations without an explicit ABI are deprecated1911 --> ../src/ffi.rs:302:201912 |1913302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...1914 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1915...1916375 | / gen_functions!(1917376 | | block_new_aa_trace_xdrop,1918377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",1919378 | | block_align_aa_trace_xdrop,1920... |1921392 | | AAMatrix, AAProfile, true, true1922393 | | );1923 | |_- in this macro invocation1924 |1925 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)19261927warning: `extern` declarations without an explicit ABI are deprecated1928 --> ../src/ffi.rs:309:201929 |1930309 | pub unsafe extern fn $free_name(b: BlockHandle) {1931 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`1932...1933375 | / gen_functions!(1934376 | | block_new_aa_trace_xdrop,1935377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",1936378 | | block_align_aa_trace_xdrop,1937... |1938392 | | AAMatrix, AAProfile, true, true1939393 | | );1940 | |_- in this macro invocation1941 |1942 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)19431944warning: `block_aligner_c` (lib) generated 55 warnings (run `cargo fix --lib -p block_aligner_c` to apply 55 suggestions)1945 Finished `release` profile [optimized] target(s) in 0.00s1946[ 35%] Built target gemmiwrapper1947Copying byproducts `libblock_aligner_c.a` to /build/source/build/lib/foldseek1948[ 35%] Built target _cargo-build_block_aligner_c1949[ 35%] Built target cargo-build_block_aligner_c1950[ 84%] Built target mmseqs-framework1951[ 84%] Built target pulchra1952[ 85%] Built target kerasify1953[ 85%] Built target 3di1954[ 86%] Built target tmalign1955[ 96%] Built target foldseek-framework1956[100%] Built target foldmason1957Install the project...1958-- Install configuration: "Release"1959-- Installing: /nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/bin/foldmasonfixupPhase
1960shrinking RPATHs of ELF executables and libraries in /nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c2351961shrinking /nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/bin/foldmason1962checking for references to /build/ in /nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235...1963patching script interpreter paths in /nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c2351964stripping (with command strip and flags -S -p) in /nix/store/wihr0k0sbw1pmqg0lm92vdzylp3cigwl-foldmason-4-dd3c235/bin