[package - 124i386-default][biology/bifrost] Failed for bifrost-1.2.1 in build
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Date: Mon, 17 Jul 2023 01:09:19 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: jwb@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/beefy5/data/124i386-default/8fb94260154e/logs/bifrost-1.2.1.log
Build URL: https://pkg-status.freebsd.org/beefy5/build.html?mastername=124i386-default&build=8fb94260154e
Log:
=>> Building biology/bifrost
build started at Mon Jul 17 01:09:01 UTC 2023
port directory: /usr/ports/biology/bifrost
package name: bifrost-1.2.1
building for: FreeBSD 124i386-default-job-08 12.4-RELEASE-p3 FreeBSD 12.4-RELEASE-p3 i386
maintained by: jwb@FreeBSD.org
Makefile ident:
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=======================<phase: check-sanity >============================
===> License BSD2CLAUSE accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> bifrost-1.2.1 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.20.4.pkg
[124i386-default-job-08] Installing pkg-1.20.4...
[124i386-default-job-08] Extracting pkg-1.20.4: .......... done
===> bifrost-1.2.1 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of bifrost-1.2.1
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License BSD2CLAUSE accepted by the user
=> pmelsted-bifrost-v1.2.1_GH0.tar.gz doesn't seem to exist in /portdistfiles/.
=> Attempting to fetch https://codeload.github.com/pmelsted/bifrost/tar.gz/v1.2.1?dummy=/pmelsted-bifrost-v1.2.1_GH0.tar.gz
fetch: https://codeload.github.com/pmelsted/bifrost/tar.gz/v1.2.1?dummy=/pmelsted-bifrost-v1.2.1_GH0.tar.gz: size unknown
fetch: https://codeload.github.com/pmelsted/bifrost/tar.gz/v1.2.1?dummy=/pmelsted-bifrost-v1.2.1_GH0.tar.gz: size of remote file is not known
pmelsted-bifrost-v1.2.1_GH0.tar.gz 884 kB 6165 kBps 00s
===> Fetching all distfiles required by bifrost-1.2.1 for building
===========================================================================
=======================<phase: checksum >============================
===> License BSD2CLAUSE accepted by the user
===> Fetching all distfiles required by bifrost-1.2.1 for building
=> SHA256 Checksum OK for pmelsted-bifrost-v1.2.1_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License BSD2CLAUSE accepted by the user
===> Fetching all distfiles required by bifrost-1.2.1 for building
===> Extracting for bifrost-1.2.1
=> SHA256 Checksum OK for pmelsted-bifrost-v1.2.1_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for bifrost-1.2.1
===> Applying FreeBSD patches for bifrost-1.2.1 from /usr/ports/biology/bifrost/files
===========================================================================
=======================<phase: build-depends >============================
===> bifrost-1.2.1 depends on file: /usr/local/bin/cmake - not found
===> Installing existing package /packages/All/cmake-core-3.26.1_1.pkg
[124i386-default-job-08] Installing cmake-core-3.26.1_1...
[124i386-default-job-08] `-- Installing expat-2.5.0...
[124i386-default-job-08] `-- Extracting expat-2.5.0: .......... done
[124i386-default-job-08] `-- Installing jsoncpp-1.9.5...
<snip>
~~~~~~~~~~~~ ^~~~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:2289:33: note: in instantiation of member function 'CompactedDBG<DataAccessor<void>, DataStorage<>>::annotateSplitUnitig' requested here
annotateSplitUnitig(it_unitig->referenceUnitigToString(), lck_g/*, t*/, false);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/ColoredCDBG.tcc:203:62: note: in instantiation of member function 'CompactedDBG<DataAccessor<void>, DataStorage<>>::annotateSplitUnitigs' requested here
ret = CompactedDBG<DataAccessor<U>, DataStorage<U>>::annotateSplitUnitigs(o, nb_threads, verbose);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:644:60: note: in instantiation of member function 'ColoredCDBG<>::merge' requested here
if (success) success = ccdbg_a.merge(move(ccdbg_b), lopt.nb_threads, lopt.verbose);
^
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:818:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:5653:27: warning: implicit conversion from 'unsigned long long' to 'size_t' (aka 'unsigned int') changes value from 18446744073709551615 to 4294967295 [-Wconstant-conversion]
size_t nb_prev_succ = 0xFFFFFFFFFFFFFFFF;
~~~~~~~~~~~~ ^~~~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:4829:38: warning: shift count >= width of type [-Wshift-count-overflow]
size_t pos_id_unitig = id_unitig << 32;
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1921:53: note: in instantiation of member function 'CompactedDBG<>::addUnitig' requested here
for (const auto& s : v_seq) addUnitig(s, (s.length() == k_) ? v_kmers_sz++ : v_unitigs_sz++, lck_unitig, lck_kmer);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:197:10: note: in instantiation of member function 'CompactedDBG<>::makeGraphFromFASTA' requested here
makeGraphFromFASTA(input_graph_fn, nb_threads);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:655:79: note: in instantiation of member function 'CompactedDBG<>::read' requested here
if (lopt.filename_index_in.length() == 0) success = cdbg1.read(lopt.filename_graph_in, lopt.nb_threads, lopt.verbose);
^
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:818:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:4831:40: warning: implicit conversion from 'unsigned long long' to 'const size_t' (aka 'const unsigned int') changes value from 18446744071562067968 to 2147483648 [-Wconstant-conversion]
const size_t mask = MASK_CONTIG_ID | MASK_CONTIG_TYPE;
~~~~ ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:4758:92: warning: shift count >= width of type [-Wshift-count-overflow]
if (static_cast<bool>(unitig_id_pos & MASK_CONTIG_TYPE) && ((unitig_id_pos >> 32) != RESERVED_ID)) v_km_rm.push_back(unitig_id_pos >> 32);
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1931:9: note: in instantiation of member function 'CompactedDBG<>::moveToAbundant' requested here
moveToAbundant();
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:197:10: note: in instantiation of member function 'CompactedDBG<>::makeGraphFromFASTA' requested here
makeGraphFromFASTA(input_graph_fn, nb_threads);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:655:79: note: in instantiation of member function 'CompactedDBG<>::read' requested here
if (lopt.filename_index_in.length() == 0) success = cdbg1.read(lopt.filename_graph_in, lopt.nb_threads, lopt.verbose);
^
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:818:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:4758:148: warning: shift count >= width of type [-Wshift-count-overflow]
if (static_cast<bool>(unitig_id_pos & MASK_CONTIG_TYPE) && ((unitig_id_pos >> 32) != RESERVED_ID)) v_km_rm.push_back(unitig_id_pos >> 32);
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:4805:78: warning: implicit conversion from 'unsigned long long' to 'size_t' (aka 'unsigned int') changes value from 18446744069414584321 to 1 [-Wconstant-conversion]
else flag_v = v.push_back(MASK_CONTIG_ID + 1, flag_v);
~~~~~~~~~ ~~~~~~~~~~~~~~~^~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:6161:42: warning: shift count >= width of type [-Wshift-count-overflow]
size_t pos_id_unitig = id_unitig << 32;
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:4774:25: note: in instantiation of member function 'CompactedDBG<>::deleteUnitig_' requested here
deleteUnitig_(true, false, id_swap, unitig_str);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1931:9: note: in instantiation of member function 'CompactedDBG<>::moveToAbundant' requested here
moveToAbundant();
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:197:10: note: in instantiation of member function 'CompactedDBG<>::makeGraphFromFASTA' requested here
makeGraphFromFASTA(input_graph_fn, nb_threads);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:655:79: note: in instantiation of member function 'CompactedDBG<>::read' requested here
if (lopt.filename_index_in.length() == 0) success = cdbg1.read(lopt.filename_graph_in, lopt.nb_threads, lopt.verbose);
^
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:818:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:6162:44: warning: implicit conversion from 'unsigned long long' to 'const size_t' (aka 'const unsigned int') changes value from 18446744071562067968 to 2147483648 [-Wconstant-conversion]
const size_t mask = MASK_CONTIG_ID | MASK_CONTIG_TYPE;
~~~~ ~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:820:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1209:34: warning: shift count >= width of type [-Wshift-count-overflow]
if ((file_format_version >> 32) != BFG_GRAPHBIN_FORMAT_HEADER) return {graph_checksum, false};
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1177:12: note: in instantiation of member function 'CompactedDBG<>::readBinaryGraph' requested here
return readBinaryGraph(in);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:383:31: note: in instantiation of member function 'CompactedDBG<>::readBinaryGraph' requested here
p_readSuccess_checksum = readBinaryGraph(input_graph_fn);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:656:42: note: in instantiation of member function 'CompactedDBG<>::read' requested here
else success = cdbg1.read(lopt.filename_graph_in, lopt.filename_index_in, lopt.nb_threads, lopt.verbose);
^
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:820:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:994:52: warning: shift count >= width of type [-Wshift-count-overflow]
if (!read_success || ((file_format_version >> 32) != BFG_METABIN_FORMAT_HEADER)) return false;
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:946:12: note: in instantiation of member function 'CompactedDBG<>::readBinaryIndex' requested here
return readBinaryIndex(in, checksum);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:393:17: note: in instantiation of member function 'CompactedDBG<>::readBinaryIndex' requested here
invalid = !readBinaryIndex(input_index_fn, p_readSuccess_checksum.first);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:656:42: note: in instantiation of member function 'CompactedDBG<>::read' requested here
else success = cdbg1.read(lopt.filename_graph_in, lopt.filename_index_in, lopt.nb_threads, lopt.verbose);
^
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:820:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1016:41: warning: shift count >= width of type [-Wshift-count-overflow]
const size_t id_bmp = i << 32;
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1031:61: warning: shift count >= width of type [-Wshift-count-overflow]
const size_t pos_id_unitig = (unitig_id << 32) | relative_pos;
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1064:41: warning: shift count >= width of type [-Wshift-count-overflow]
const size_t id_bmp = i << 32;
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1073:57: warning: shift count >= width of type [-Wshift-count-overflow]
const size_t pos_id_unitig = (km_id << 32) | MASK_CONTIG_TYPE | km_pos;
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1100:66: warning: shift count >= width of type [-Wshift-count-overflow]
vector<BitContainer> v_bmp_abundant((nb_special_minz >> 32) + 1);
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1101:69: warning: shift count >= width of type [-Wshift-count-overflow]
vector<BitContainer> v_bmp_overcrowded((nb_special_minz >> 32) + 1);
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1110:58: warning: shift count >= width of type [-Wshift-count-overflow]
const bool isAbundant = v_bmp_abundant[i >> 32].contains(i & 0x00000000ffffffffULL);
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/IO.tcc:1111:64: warning: shift count >= width of type [-Wshift-count-overflow]
const bool isOvercrowded = v_bmp_overcrowded[i >> 32].contains(i & 0x00000000ffffffffULL);
^ ~~
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:818:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:5501:27: warning: implicit conversion from 'unsigned long long' to 'size_t' (aka 'unsigned int') changes value from 18446744073709551615 to 4294967295 [-Wconstant-conversion]
size_t nb_prev_pred = 0xFFFFFFFFFFFFFFFF;
~~~~~~~~~~~~ ^~~~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:2248:42: note: in instantiation of member function 'CompactedDBG<>::annotateSplitUnitig' requested here
for (const auto& unitig : o) annotateSplitUnitig(unitig.referenceUnitigToString(), false);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:2134:13: note: in instantiation of member function 'CompactedDBG<>::annotateSplitUnitigs' requested here
if (annotateSplitUnitigs(o, nb_threads, verbose)){
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:676:50: note: in instantiation of member function 'CompactedDBG<>::merge' requested here
success = cdbg_a.merge(cdbg_b, lopt.nb_threads, lopt.verbose);
^
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:818:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:5502:27: warning: implicit conversion from 'unsigned long long' to 'size_t' (aka 'unsigned int') changes value from 18446744073709551615 to 4294967295 [-Wconstant-conversion]
size_t nb_prev_succ = 0xFFFFFFFFFFFFFFFF;
~~~~~~~~~~~~ ^~~~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:5652:27: warning: implicit conversion from 'unsigned long long' to 'size_t' (aka 'unsigned int') changes value from 18446744073709551615 to 4294967295 [-Wconstant-conversion]
size_t nb_prev_pred = 0xFFFFFFFFFFFFFFFF;
~~~~~~~~~~~~ ^~~~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:2289:33: note: in instantiation of member function 'CompactedDBG<>::annotateSplitUnitig' requested here
annotateSplitUnitig(it_unitig->referenceUnitigToString(), lck_g/*, t*/, false);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:2134:13: note: in instantiation of member function 'CompactedDBG<>::annotateSplitUnitigs' requested here
if (annotateSplitUnitigs(o, nb_threads, verbose)){
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:676:50: note: in instantiation of member function 'CompactedDBG<>::merge' requested here
success = cdbg_a.merge(cdbg_b, lopt.nb_threads, lopt.verbose);
^
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:818:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:5653:27: warning: implicit conversion from 'unsigned long long' to 'size_t' (aka 'unsigned int') changes value from 18446744073709551615 to 4294967295 [-Wconstant-conversion]
size_t nb_prev_succ = 0xFFFFFFFFFFFFFFFF;
~~~~~~~~~~~~ ^~~~~~~~~~~~~~~~~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:795:43: warning: shift count >= width of type [-Wshift-count-overflow]
unitig_id = unitig_id_pos >> 32;
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:4537:32: note: in instantiation of member function 'CompactedDBG<DataAccessor<void>, DataStorage<>>::find' requested here
const_UnitigMap<U, G> um = find(s, pos, it_min);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Search.tcc:668:62: note: in instantiation of member function 'CompactedDBG<DataAccessor<void>, DataStorage<>>::findUnitig' requested here
const const_UnitigMap<U, G> um = findUnitig(s_inexact_str, pos_s, s_inexact_len, mhi);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/ColoredCDBG.tcc:1576:76: note: in instantiation of member function 'CompactedDBG<DataAccessor<void>, DataStorage<>>::searchSequence' requested here
const vector<pair<size_t, const_UnitigColorMap<U>>> v_um_e = this->searchSequence(query, true, false, false, false, false);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:696:50: note: in instantiation of member function 'ColoredCDBG<>::search' requested here
if (success) success = ccdbg.search(opt.filename_query_in, opt.prefixFilenameOut, opt.ratio_kmers, opt.inexact_search, opt.nb_threads, opt.verbose);
^
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:1:
In file included from /wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.hpp:818:
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:795:43: warning: shift count >= width of type [-Wshift-count-overflow]
unitig_id = unitig_id_pos >> 32;
^ ~~
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/CompactedDBG.tcc:4537:32: note: in instantiation of member function 'CompactedDBG<>::find' requested here
const_UnitigMap<U, G> um = find(s, pos, it_min);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Search.tcc:937:62: note: in instantiation of member function 'CompactedDBG<>::findUnitig' requested here
const const_UnitigMap<U, G> um = findUnitig(s_inexact_str, pos_s, s_inexact_len, mhi);
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Search.tcc:1132:71: note: in instantiation of member function 'CompactedDBG<>::searchSequence' requested here
const vector<pair<size_t, const_UnitigMap<U, G>>> v = dbg.searchSequence( s, true, inexact_search, inexact_search,
^
/wrkdirs/usr/ports/biology/bifrost/work/bifrost-1.2.1/src/Bifrost.cpp:705:49: note: in instantiation of member function 'CompactedDBG<>::search' requested here
if (success) success = cdbg.search(opt.filename_query_in, opt.prefixFilenameOut, opt.ratio_kmers, opt.inexact_search, opt.nb_threads, opt.verbose);
^
192 warnings and 9 errors generated.
ninja: build stopped: subcommand failed.
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/bifrost