foldmason-4-dd3c235
checks.x86_64-linux.pkgs-foldmason
· build #65
· 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/kfqbfq23lafkrbhxxblzf65baqz5p1ia-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/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/share/locale -DCMAKE_INSTALL_LIBEXECDIR=/nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/libexec -DCMAKE_INSTALL_LIBDIR=/nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/lib -DCMAKE_INSTALL_DOCDIR=/nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/share/doc/foldseek -DCMAKE_INSTALL_INFODIR=/nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/share/info -DCMAKE_INSTALL_MANDIR=/nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/share/man -DCMAKE_INSTALL_INCLUDEDIR=/nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/include -DCMAKE_INSTALL_SBINDIR=/nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/sbin -DCMAKE_INSTALL_BINDIR=/nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/bin -DCMAKE_INSTALL_NAME_DIR=/nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/lib -DCMAKE_STRIP=/nix/store/w88q44gqd1qg5wmkk7v0h97rpiqvam0l-gcc-wrapper-15.3.0/bin/strip -DCMAKE_RANLIB=/nix/store/w88q44gqd1qg5wmkk7v0h97rpiqvam0l-gcc-wrapper-15.3.0/bin/ranlib -DCMAKE_AR=/nix/store/w88q44gqd1qg5wmkk7v0h97rpiqvam0l-gcc-wrapper-15.3.0/bin/ar -DCMAKE_C_COMPILER=gcc -DCMAKE_CXX_COMPILER=g++ -DCMAKE_INSTALL_PREFIX=/nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-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/w88q44gqd1qg5wmkk7v0h97rpiqvam0l-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/w88q44gqd1qg5wmkk7v0h97rpiqvam0l-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/yaa1sq5g4jar7rvlspy7kk2wd98nj6qh-rustc-wrapper-1.97.1/bin/rustc (found version "1.97.1")51-- Using Corrosion as a subdirectory52-- Rust Feature: simd_avx253-- xxd not found, using xxdi.pl instead54-- ShellCheck not found55-- Configuring done (2.8s)56-- Generating done (0.1s)57CMake Warning: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/9ipfvwnqp1q8ijnmi5sxvlx9r8w34lw3-bash-5.3p15/bin/bash76[ 0%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/common/fse_decompress.c.o77[ 0%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/common/threading.c.o78[ 0%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/common/zstd_common.c.o79[ 1%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/common/xxhash.c.o80[ 1%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/common/entropy_common.c.o81[ 1%] Building CXX object src/version/CMakeFiles/version.dir/Version.cpp.o82[ 1%] Building C object 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object lib/foldseek/lib/foldcomp/CMakeFiles/foldcomp.dir/src/torsion_angle.cpp.o126[ 14%] Linking CXX static library libversion.a127[ 14%] Generating ../generated/PAM30.out.h128[ 14%] Generating ../generated/CovSeqidQscPercMinDiag.lib.h129[ 14%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/sls_pvalues.cpp.o130[ 14%] Building CXX object lib/foldseek/lib/foldcomp/CMakeFiles/foldcomp.dir/src/utility.cpp.o131[ 14%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/compress/zstd_double_fast.c.o132[ 14%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/compress/zstd_opt.c.o133[ 15%] Generating ../generated/encoder_weights_3di.kerasify.h134[ 15%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/compress/zstd_lazy.c.o135[ 15%] Building CXX object 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lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/decompress/zstd_decompress.c.o147[ 18%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/decompress/zstd_ddict.c.o148[ 18%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/decompress/zstd_decompress_block.c.o149[ 18%] Linking C static library libmicrotar.a150[ 18%] Generating ../generated/Library255_may17.lib.h151/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c: In function 'base':152/build/source/lib/foldseek/lib/mmseqs/lib/tinyexpr/tinyexpr.c:373:16: warning: array subscript 'te_expr[0]' is partly 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[ 18%] Generating ../generated/libPolished_8.lib.h187[ 18%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/dictBuilder/fastcover.c.o188[ 18%] Built target microtar189[ 19%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/dictBuilder/cover.c.o190[ 19%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/sls_alp.cpp.o191[ 20%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/njn_localmaxstatutil.cpp.o192 Compiling block_aligner_c v0.4.0 (/build/source/lib/foldseek/lib/block-aligner/c)193[ 20%] Generating ../generated/cs219.lib.h194[ 21%] Generating ../generated/krona_prelude.html.h195[ 21%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/dictBuilder/divsufsort.c.o196[ 22%] Generating ../generated/makepaddeddb.sh.h197[ 23%] Generating ../generated/result_viz_prelude.html.zst.h198[ 23%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/dictBuilder/zdict.c.o199[ 24%] Generating ../generated/result2structprofile.sh.h200[ 24%] Generating ../generated/K4000.crf.h201[ 25%] Generating ../generated/createstructsubdb.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[ 25%] Generating ../generated/multimersearch.sh.h210[ 25%] Generating ../generated/easymultimersearch.sh.h211[ 25%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/sls_basic.cpp.o212[ 25%] Generating ../generated/easysearch.sh.h213[ 25%] Generating ../generated/multimercluster.sh.h214[ 25%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/sls_alp_data.cpp.o215[ 26%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/deprecated/zbuff_common.c.o216[ 26%] Building CXX object lib/foldseek/lib/mmseqs/lib/alp/CMakeFiles/alp.dir/njn_ioutil.cpp.o217[ 26%] Generating ../generated/easycluster.sh.h218[ 26%] Generating ../generated/easymultimercluster.sh.h219warning: `extern` declarations without an explicit ABI are deprecated220 --> ../src/ffi.rs:32:12221 |22232 | pub unsafe extern fn block_new_simple_aamatrix(match_score: i8, mismatch_score: i8) -> *mut AAMatrix {223 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`224 |225 = note: `#[warn(missing_abi)]` on by default226227warning: `extern` declarations without an explicit ABI are deprecated228 --> ../src/ffi.rs:39:12229 |23039 | pub unsafe extern fn block_set_aamatrix(matrix: *mut AAMatrix, a: u8, b: u8, score: i8) {231 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`232233warning: `extern` declarations without an explicit ABI are deprecated234 --> ../src/ffi.rs:46:12235 |23646 | pub unsafe extern fn block_free_aamatrix(matrix: *mut AAMatrix) {237 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`238239warning: `extern` declarations without an explicit ABI are deprecated240 --> ../src/ffi.rs:61:12241 |24261 | pub unsafe extern fn block_new_aaprofile(str_len: usize, block_size: usize, gap_extend: i8) -> *mut AAProfile {243 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`244245warning: `extern` declarations without an explicit ABI are deprecated246 --> ../src/ffi.rs:68:12247 |24868 | pub unsafe extern fn block_len_aaprofile(profile: *const AAProfile) -> usize {249 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`250251warning: `extern` declarations without an explicit ABI are deprecated252 --> ../src/ffi.rs:76:12253 |25476 | pub unsafe extern fn block_clear_aaprofile(profile: *mut AAProfile, str_len: usize) {255 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`256257warning: `extern` declarations without an explicit ABI are deprecated258 --> ../src/ffi.rs:86:12259 |26086 | pub unsafe extern fn block_set_aaprofile(profile: *mut AAProfile, i: usize, b: u8, score: i8) {261 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`262263warning: `extern` declarations without an explicit ABI are deprecated264 --> ../src/ffi.rs:97:12265 |26697 | pub unsafe extern fn block_set_gap_open_C_aaprofile(profile: *mut AAProfile, i: usize, gap: i8) {267 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`268269warning: `extern` declarations without an explicit ABI are deprecated270 --> ../src/ffi.rs:108:12271 |272108 | pub unsafe extern fn block_set_gap_close_C_aaprofile(profile: *mut AAProfile, i: usize, gap: i8) {273 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`274275warning: `extern` declarations without an explicit ABI are deprecated276 --> ../src/ffi.rs:119:12277 |278119 | pub unsafe extern fn block_set_gap_open_R_aaprofile(profile: *mut AAProfile, i: usize, gap: i8) {279 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`280281warning: `extern` declarations without an explicit ABI are deprecated282 --> ../src/ffi.rs:126:12283 |284126 | pub unsafe extern fn block_get_aaprofile(profile: *const AAProfile, i: usize, b: u8) -> i8 {285 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`286287warning: `extern` declarations without an explicit ABI are deprecated288 --> ../src/ffi.rs:133:12289 |290133 | pub unsafe extern fn block_get_gap_extend_aaprofile(profile: *const AAProfile) -> i8 {291 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`292293warning: `extern` declarations without an explicit ABI are deprecated294 --> ../src/ffi.rs:140:12295 |296140 | pub unsafe extern fn block_free_aaprofile(profile: *mut AAProfile) {297 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`298299warning: `extern` declarations without an explicit ABI are deprecated300 --> ../src/ffi.rs:149:12301 |302149 | pub unsafe extern fn block_new_cigar(query_len: usize, reference_len: usize) -> *mut Cigar {303 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`304305warning: `extern` declarations without an explicit ABI are deprecated306 --> ../src/ffi.rs:156:12307 |308156 | pub unsafe extern fn block_get_cigar(cigar: *const Cigar, i: usize) -> OpLen {309 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`310311warning: `extern` declarations without an explicit ABI are deprecated312 --> ../src/ffi.rs:163:12313 |314163 | pub unsafe extern fn block_len_cigar(cigar: *const Cigar) -> usize {315 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`316317warning: `extern` declarations without an explicit ABI are deprecated318 --> ../src/ffi.rs:170:12319 |320170 | pub unsafe extern fn block_free_cigar(cigar: *mut Cigar) {321 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`322323warning: `extern` declarations without an explicit ABI are deprecated324 --> ../src/ffi.rs:179:12325 |326179 | pub unsafe extern fn block_new_padded_aa(len: usize, max_size: usize) -> *mut PaddedBytes {327 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`328329warning: `extern` declarations without an explicit ABI are deprecated330 --> ../src/ffi.rs:186:12331 |332186 | pub unsafe extern fn block_set_bytes_padded_aa(padded: *mut PaddedBytes, s: *const u8, len: usize, max_size: usize) {333 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`334335warning: `extern` declarations without an explicit ABI are deprecated336 --> ../src/ffi.rs:194:12337 |338194 | pub unsafe extern fn block_free_padded_aa(padded: *mut PaddedBytes) {339 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`340341warning: `extern` declarations without an explicit ABI are deprecated342 --> ../src/ffi.rs:203:12343 |344203 | pub unsafe extern fn block_new_pos_bias(len: usize, max_size: usize) -> *mut PosBias {345 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`346347warning: `extern` declarations without an explicit ABI are deprecated348 --> ../src/ffi.rs:210:12349 |350210 | pub unsafe extern fn block_set_pos_bias(bias: *mut PosBias, b: *const i16, len: usize) {351 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`352353warning: `extern` declarations without an explicit ABI are deprecated354 --> ../src/ffi.rs:218:12355 |356218 | pub unsafe extern fn block_free_pos_bias(bias: *mut PosBias) {357 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`358359warning: `extern` declarations without an explicit ABI are deprecated360 --> ../src/ffi.rs:237:20361 |362237 | pub unsafe extern fn $new_name(query_len: usize,363 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`364...365315 | / gen_functions!(366316 | | block_new_aa,367317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",368318 | | block_align_aa,369... |370332 | | AAMatrix, AAProfile, false, false371333 | | );372 | |_- in this macro invocation373 |374 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)375376warning: `extern` declarations without an explicit ABI are deprecated377 --> ../src/ffi.rs:246:20378 |379246 | pub unsafe extern fn $align_name(b: BlockHandle,380 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`381...382315 | / gen_functions!(383316 | | block_new_aa,384317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",385318 | | block_align_aa,386... |387332 | | AAMatrix, AAProfile, false, false388333 | | );389 | |_- in this macro invocation390 |391 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)392393warning: `extern` declarations without an explicit ABI are deprecated394 --> ../src/ffi.rs:259:20395 |396259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,397 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`398...399315 | / gen_functions!(400316 | | block_new_aa,401317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",402318 | | block_align_aa,403... |404332 | | AAMatrix, AAProfile, false, false405333 | | );406 | |_- in this macro invocation407 |408 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)409410warning: `extern` declarations without an explicit ABI are deprecated411 --> ../src/ffi.rs:270:20412 |413270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,414 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`415...416315 | / gen_functions!(417316 | | block_new_aa,418317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",419318 | | block_align_aa,420... |421332 | | AAMatrix, AAProfile, false, false422333 | | );423 | |_- in this macro invocation424 |425 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)426427warning: `extern` declarations without an explicit ABI are deprecated428 --> ../src/ffi.rs:288:20429 |430288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {431 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`432...433315 | / gen_functions!(434316 | | block_new_aa,435317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",436318 | | block_align_aa,437... |438332 | | AAMatrix, AAProfile, false, false439333 | | );440 | |_- in this macro invocation441 |442 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)443444warning: `extern` declarations without an explicit ABI are deprecated445 --> ../src/ffi.rs:295:20446 |447295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {448 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`449...450315 | / gen_functions!(451316 | | block_new_aa,452317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",453318 | | block_align_aa,454... |455332 | | AAMatrix, AAProfile, false, false456333 | | );457 | |_- in this macro invocation458 |459 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)460461warning: `extern` declarations without an explicit ABI are deprecated462 --> ../src/ffi.rs:302:20463 |464302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...465 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`466...467315 | / gen_functions!(468316 | | block_new_aa,469317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",470318 | | block_align_aa,471... |472332 | | AAMatrix, AAProfile, false, false473333 | | );474 | |_- in this macro invocation475 |476 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)477478warning: `extern` declarations without an explicit ABI are deprecated479 --> ../src/ffi.rs:309:20480 |481309 | pub unsafe extern fn $free_name(b: BlockHandle) {482 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`483...484315 | / gen_functions!(485316 | | block_new_aa,486317 | | "Create a new block aligner instance for global alignment of amino acid strings (no traceback).",487318 | | block_align_aa,488... |489332 | | AAMatrix, AAProfile, false, false490333 | | );491 | |_- in this macro invocation492 |493 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)494495warning: `extern` declarations without an explicit ABI are deprecated496 --> ../src/ffi.rs:237:20497 |498237 | pub unsafe extern fn $new_name(query_len: usize,499 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`500...501335 | / gen_functions!(502336 | | block_new_aa_xdrop,503337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",504338 | | block_align_aa_xdrop,505... |506352 | | AAMatrix, AAProfile, false, true507353 | | );508 | |_- in this macro invocation509 |510 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)511512warning: `extern` declarations without an explicit ABI are deprecated513 --> ../src/ffi.rs:246:20514 |515246 | pub unsafe extern fn $align_name(b: BlockHandle,516 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`517...518335 | / gen_functions!(519336 | | block_new_aa_xdrop,520337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",521338 | | block_align_aa_xdrop,522... |523352 | | AAMatrix, AAProfile, false, true524353 | | );525 | |_- in this macro invocation526 |527 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)528529warning: `extern` declarations without an explicit ABI are deprecated530 --> ../src/ffi.rs:259:20531 |532259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,533 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`534...535335 | / gen_functions!(536336 | | block_new_aa_xdrop,537337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",538338 | | block_align_aa_xdrop,539... |540352 | | AAMatrix, AAProfile, false, true541353 | | );542 | |_- in this macro invocation543 |544 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)545546warning: `extern` declarations without an explicit ABI are deprecated547 --> ../src/ffi.rs:270:20548 |549270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,550 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`551...552335 | / gen_functions!(553336 | | block_new_aa_xdrop,554337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",555338 | | block_align_aa_xdrop,556... |557352 | | AAMatrix, AAProfile, false, true558353 | | );559 | |_- in this macro invocation560 |561 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)562563warning: `extern` declarations without an explicit ABI are deprecated564 --> ../src/ffi.rs:288:20565 |566288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {567 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`568...569335 | / gen_functions!(570336 | | block_new_aa_xdrop,571337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",572338 | | block_align_aa_xdrop,573... |574352 | | AAMatrix, AAProfile, false, true575353 | | );576 | |_- in this macro invocation577 |578 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)579580warning: `extern` declarations without an explicit ABI are deprecated581 --> ../src/ffi.rs:295:20582 |583295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {584 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`585...586335 | / gen_functions!(587336 | | block_new_aa_xdrop,588337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",589338 | | block_align_aa_xdrop,590... |591352 | | AAMatrix, AAProfile, false, true592353 | | );593 | |_- in this macro invocation594 |595 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)596597warning: `extern` declarations without an explicit ABI are deprecated598 --> ../src/ffi.rs:302:20599 |600302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...601 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`602...603335 | / gen_functions!(604336 | | block_new_aa_xdrop,605337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",606338 | | block_align_aa_xdrop,607... |608352 | | AAMatrix, AAProfile, false, true609353 | | );610 | |_- in this macro invocation611 |612 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)613614warning: `extern` declarations without an explicit ABI are deprecated615 --> ../src/ffi.rs:309:20616 |617309 | pub unsafe extern fn $free_name(b: BlockHandle) {618 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`619...620335 | / gen_functions!(621336 | | block_new_aa_xdrop,622337 | | "Create a new block aligner instance for X-drop alignment of amino acid strings (no traceback).",623338 | | block_align_aa_xdrop,624... |625352 | | AAMatrix, AAProfile, false, true626353 | | );627 | |_- in this macro invocation628 |629 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)630631warning: `extern` declarations without an explicit ABI are deprecated632 --> ../src/ffi.rs:237:20633 |634237 | pub unsafe extern fn $new_name(query_len: usize,635 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`636...637355 | / gen_functions!(638356 | | block_new_aa_trace,639357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",640358 | | block_align_aa_trace,641... |642372 | | AAMatrix, AAProfile, true, false643373 | | );644 | |_- in this macro invocation645 |646 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)647648warning: `extern` declarations without an explicit ABI are deprecated649 --> ../src/ffi.rs:246:20650 |651246 | pub unsafe extern fn $align_name(b: BlockHandle,652 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`653...654355 | / gen_functions!(655356 | | block_new_aa_trace,656357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",657358 | | block_align_aa_trace,658... |659372 | | AAMatrix, AAProfile, true, false660373 | | );661 | |_- in this macro invocation662 |663 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)664665warning: `extern` declarations without an explicit ABI are deprecated666 --> ../src/ffi.rs:259:20667 |668259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,669 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`670...671355 | / gen_functions!(672356 | | block_new_aa_trace,673357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",674358 | | block_align_aa_trace,675... |676372 | | AAMatrix, AAProfile, true, false677373 | | );678 | |_- in this macro invocation679 |680 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)681682warning: `extern` declarations without an explicit ABI are deprecated683 --> ../src/ffi.rs:270:20684 |685270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,686 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`687...688355 | / gen_functions!(689356 | | block_new_aa_trace,690357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",691358 | | block_align_aa_trace,692... |693372 | | AAMatrix, AAProfile, true, false694373 | | );695 | |_- in this macro invocation696 |697 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)698699warning: `extern` declarations without an explicit ABI are deprecated700 --> ../src/ffi.rs:288:20701 |702288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {703 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`704...705355 | / gen_functions!(706356 | | block_new_aa_trace,707357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",708358 | | block_align_aa_trace,709... |710372 | | AAMatrix, AAProfile, true, false711373 | | );712 | |_- in this macro invocation713 |714 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)715716warning: `extern` declarations without an explicit ABI are deprecated717 --> ../src/ffi.rs:295:20718 |719295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {720 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`721...722355 | / gen_functions!(723356 | | block_new_aa_trace,724357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",725358 | | block_align_aa_trace,726... |727372 | | AAMatrix, AAProfile, true, false728373 | | );729 | |_- in this macro invocation730 |731 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)732733warning: `extern` declarations without an explicit ABI are deprecated734 --> ../src/ffi.rs:302:20735 |736302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...737 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`738...739355 | / gen_functions!(740356 | | block_new_aa_trace,741357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",742358 | | block_align_aa_trace,743... |744372 | | AAMatrix, AAProfile, true, false745373 | | );746 | |_- in this macro invocation747 |748 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)749750warning: `extern` declarations without an explicit ABI are deprecated751 --> ../src/ffi.rs:309:20752 |753309 | pub unsafe extern fn $free_name(b: BlockHandle) {754 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`755...756355 | / gen_functions!(757356 | | block_new_aa_trace,758357 | | "Create a new block aligner instance for global alignment of amino acid strings, with traceback.",759358 | | block_align_aa_trace,760... |761372 | | AAMatrix, AAProfile, true, false762373 | | );763 | |_- in this macro invocation764 |765 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)766767warning: `extern` declarations without an explicit ABI are deprecated768 --> ../src/ffi.rs:237:20769 |770237 | pub unsafe extern fn $new_name(query_len: usize,771 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`772...773375 | / gen_functions!(774376 | | block_new_aa_trace_xdrop,775377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",776378 | | block_align_aa_trace_xdrop,777... |778392 | | AAMatrix, AAProfile, true, true779393 | | );780 | |_- in this macro invocation781 |782 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)783784warning: `extern` declarations without an explicit ABI are deprecated785 --> ../src/ffi.rs:246:20786 |787246 | pub unsafe extern fn $align_name(b: BlockHandle,788 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`789...790375 | / gen_functions!(791376 | | block_new_aa_trace_xdrop,792377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",793378 | | block_align_aa_trace_xdrop,794... |795392 | | AAMatrix, AAProfile, true, true796393 | | );797 | |_- in this macro invocation798 |799 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)800801warning: `extern` declarations without an explicit ABI are deprecated802 --> ../src/ffi.rs:259:20803 |804259 | pub unsafe extern fn $align_profile_name(b: BlockHandle,805 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`806...807375 | / gen_functions!(808376 | | block_new_aa_trace_xdrop,809377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",810378 | | block_align_aa_trace_xdrop,811... |812392 | | AAMatrix, AAProfile, true, true813393 | | );814 | |_- in this macro invocation815 |816 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)817818warning: `extern` declarations without an explicit ABI are deprecated819 --> ../src/ffi.rs:270:20820 |821270 | pub unsafe extern fn $align_3di_name(b: BlockHandle,822 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`823...824375 | / gen_functions!(825376 | | block_new_aa_trace_xdrop,826377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",827378 | | block_align_aa_trace_xdrop,828... |829392 | | AAMatrix, AAProfile, true, true830393 | | );831 | |_- in this macro invocation832 |833 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)834835warning: `extern` declarations without an explicit ABI are deprecated836 --> ../src/ffi.rs:288:20837 |838288 | pub unsafe extern fn $res_name(b: BlockHandle) -> AlignResult {839 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`840...841375 | / gen_functions!(842376 | | block_new_aa_trace_xdrop,843377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",844378 | | block_align_aa_trace_xdrop,845... |846392 | | AAMatrix, AAProfile, true, true847393 | | );848 | |_- in this macro invocation849 |850 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)851852warning: `extern` declarations without an explicit ABI are deprecated853 --> ../src/ffi.rs:295:20854 |855295 | pub unsafe extern fn $trace_name(b: BlockHandle, query_idx: usize, reference_idx: usize, cigar: *mut Cigar) {856 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`857...858375 | / gen_functions!(859376 | | block_new_aa_trace_xdrop,860377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",861378 | | block_align_aa_trace_xdrop,862... |863392 | | AAMatrix, AAProfile, true, true864393 | | );865 | |_- in this macro invocation866 |867 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)868869warning: `extern` declarations without an explicit ABI are deprecated870 --> ../src/ffi.rs:302:20871 |872302 | pub unsafe extern fn $trace_eq_name(b: BlockHandle, q: *const PaddedBytes, r: *const PaddedBytes, query_idx: usize, refer...873 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`874...875375 | / gen_functions!(876376 | | block_new_aa_trace_xdrop,877377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",878378 | | block_align_aa_trace_xdrop,879... |880392 | | AAMatrix, AAProfile, true, true881393 | | );882 | |_- in this macro invocation883 |884 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)885886warning: `extern` declarations without an explicit ABI are deprecated887 --> ../src/ffi.rs:309:20888 |889309 | pub unsafe extern fn $free_name(b: BlockHandle) {890 | ^^^^^^ help: explicitly specify the "C" ABI: `extern "C"`891...892375 | / gen_functions!(893376 | | block_new_aa_trace_xdrop,894377 | | "Create a new block aligner instance for X-drop alignment of amino acid strings, with traceback.",895378 | | block_align_aa_trace_xdrop,896... |897392 | | AAMatrix, AAProfile, true, true898393 | | );899 | |_- in this macro invocation900 |901 = note: this warning originates in the macro `gen_functions` (in Nightly builds, run with -Z macro-backtrace for more info)902903[ 27%] Generating ../generated/easytaxonomy.sh.h904[ 27%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/deprecated/zbuff_compress.c.o905[ 27%] Linking C static library libtinyexpr.a906[ 27%] Generating ../generated/easyrbh.sh.h907[ 28%] Generating ../generated/blastp.sh.h908[ 28%] Generating ../generated/blastpgp.sh.h909[ 28%] Building C object lib/foldseek/lib/mmseqs/lib/zstd/build/cmake/lib/CMakeFiles/libzstd_static.dir/__/__/__/lib/deprecated/zbuff_decompress.c.o910[ 29%] Generating ../generated/map.sh.h911[ 29%] Generating ../generated/rbh.sh.h912[ 29%] Built target tinyexpr913[ 29%] Generating ../generated/linclust.sh.h914[ 30%] Generating ../generated/clustering.sh.h915[ 30%] Generating ../generated/cascaded_clustering.sh.h916[ 30%] Generating ../generated/update_clustering.sh.h917[ 30%] Generating ../generated/searchtargetprofile.sh.h918[ 30%] Generating ../generated/createindex.sh.h919[ 30%] Generating ../generated/createtaxdb.sh.h920[ 31%] Generating ../generated/taxpercontig.sh.h921[ 31%] Generating ../generated/multihitdb.sh.h922[ 31%] Generating ../generated/translated_search.sh.h923[ 31%] Generating ../generated/enrich.sh.h924[ 31%] Generating ../generated/multihitsearch.sh.h925[ 31%] Generating ../generated/searchslicedtargetprofile.sh.h926[ 31%] Generating ../generated/blastn.sh.h927[ 31%] Generating ../generated/taxonomy.sh.h928[ 31%] Generating ../generated/linsearch.sh.h929[ 32%] Generating ../generated/databases.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 ksw2935[ 33%] Built target local-generated936[ 33%] Built target foldmason-generated937[ 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 5.22s942Copying byproducts `libblock_aligner_c.a` to /build/source/build/lib/foldseek943[ 34%] Built target 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lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/MultipleAlignment.cpp.o957[ 37%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/PSSMCalculator.cpp.o958[ 38%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/StripedSmithWaterman.cpp.o959[ 38%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/BandedNucleotideAligner.cpp.o960[ 38%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/rescorediagonal.cpp.o961[ 38%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/alignment/Fwbw.cpp.o962[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/clustering/Main.cpp.o963[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/clustering/AlignmentSymmetry.cpp.o964[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/clustering/Clustering.cpp.o965[ 39%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/clustering/ClusteringAlgorithms.cpp.o966[ 40%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/commons/CSProfile.cpp.o967[ 40%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/commons/A3MReader.cpp.o968[ 40%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/commons/Application.cpp.o969[ 41%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/commons/BaseMatrix.cpp.o970[ 41%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/commons/Command.cpp.o971[ 41%] Building CXX object lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/commons/DBConcat.cpp.o972[ 41%] Building CXX object 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lib/foldseek/lib/mmseqs/src/CMakeFiles/mmseqs-framework.dir/util/summarizetabs.cpp.o1098/build/source/lib/foldseek/lib/mmseqs/src/util/result2flat.cpp: In function 'int result2flat(int, const char**, const Command&)':1099/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]1100 65 | dbKeyBuffer.size();1101 | ~~~~~~~~~~~~~~~~^~1102In file included from /nix/store/4yxdxw3kppr2pbic95p4mri520rkdag2-gcc-15.3.0/include/c++/15.3.0/string:56,1103 from /build/source/lib/foldseek/lib/mmseqs/src/commons/Parameters.h:7,1104 from 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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/4yxdxw3kppr2pbic95p4mri520rkdag2-gcc-15.3.0/include/c++/15.3.0/bits/new_allocator.h:34,1208 from /nix/store/4yxdxw3kppr2pbic95p4mri520rkdag2-gcc-15.3.0/include/c++/15.3.0/x86_64-unknown-linux-gnu/bits/c++allocator.h:33,1209 from /nix/store/4yxdxw3kppr2pbic95p4mri520rkdag2-gcc-15.3.0/include/c++/15.3.0/bits/allocator.h:46,1210 from /nix/store/4yxdxw3kppr2pbic95p4mri520rkdag2-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/4yxdxw3kppr2pbic95p4mri520rkdag2-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/4yxdxw3kppr2pbic95p4mri520rkdag2-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/qwi863qp79xkdm2yw3xzjh73dpg9qh67-glibc-2.42-84-dev/include/string.h:548,1225 from /nix/store/4yxdxw3kppr2pbic95p4mri520rkdag2-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/qwi863qp79xkdm2yw3xzjh73dpg9qh67-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/qwi863qp79xkdm2yw3xzjh73dpg9qh67-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 1 minutes 34 secondsinstallPhase
1247install flags: -j48 SHELL=/nix/store/9ipfvwnqp1q8ijnmi5sxvlx9r8w34lw3-bash-5.3p15/bin/bash install1248[ 0%] Built target cargo-prebuild_block_aligner_c1249[ 6%] Built target local-generated1250[ 7%] Built target foldmason-generated1251[ 8%] Built target version1252[ 8%] Built target tinyexpr1253[ 8%] Built target microtar1254[ 19%] Built target generated1255[ 19%] Built target ksw21256[ 26%] Built target libzstd_static1257[ 27%] Built target tantan1258[ 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[ 84%] Built target 3di1953[ 85%] Built target tmalign1954[ 86%] Built target kerasify1955[ 96%] Built target foldseek-framework1956[100%] Built target foldmason1957Install the project...1958-- Install configuration: "Release"1959-- Installing: /nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/bin/foldmasonfixupPhase
1960shrinking RPATHs of ELF executables and libraries in /nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c2351961shrinking /nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/bin/foldmason1962checking for references to /build/ in /nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235...1963patching script interpreter paths in /nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c2351964stripping (with command strip and flags -S -p) in /nix/store/w5jrl7mcwbkk448a2fxni4v68axp0jbs-foldmason-4-dd3c235/bin