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View Code? Open in Web Editor NEWXAVIER: High-Performance X-Drop Adaptive Banded Pairwise Alignment
License: Other
XAVIER: High-Performance X-Drop Adaptive Banded Pairwise Alignment
License: Other
Hell XAVIER team,
This has been mentioned but no fix (GCC 11):
src/trace.cpp:81:55: warning: missing initializer for member ‘xavier::Trace::AlignmentPair::decodedCigar’ [-Wmissing-field-initializers]
81 | AlignmentPair traceback = {"", 0, 0, 0};
| ^
src/trace.cpp:83:20: error: expected primary-expression before ‘?’ token
83 | if(? != VectorRegister::VECTORWIDTH)
| ^
src/trace.cpp:83:22: error: expected primary-expression before ‘!=’ token
83 | if(? != VectorRegister::VECTORWIDTH)
| ^~
src/trace.cpp:83:52: error: expected ‘:’ before ‘)’ token
83 | if(? != VectorRegister::VECTORWIDTH)
| ^
| :
src/trace.cpp:83:52: error: expected primary-expression before ‘)’ token
src/trace.cpp:154:17: error: jump to label ‘dp’
154 | dp:
| ^~
src/trace.cpp:84:30: note: from here
84 | goto dp;
| ^~
src/trace.cpp:93:24: note: crosses initialization of ‘size_t sq_diag_pos’
93 | size_t sq_diag_pos = 0;
| ^~~~~~~~~~~
src/trace.cpp:92:24: note: crosses initialization of ‘size_t sq_above_pos’
92 | size_t sq_above_pos = 0;
| ^~~~~~~~~~~~
src/trace.cpp:91:24: note: crosses initialization of ‘size_t sq_left_pos’
91 | size_t sq_left_pos = 0;
| ^~~~~~~~~~~
src/trace.cpp:88:24: note: crosses initialization of ‘size_t dp_pos’
88 | size_t dp_pos = itAtMax->antiDiag3.argmax();
| ^~~~~~
src/trace.cpp:87:22: note: crosses initialization of ‘std::reverse_iterator<__gnu_cxx::__normal_iterator<xavier::TraceEntry*, std::vectorxavier::TraceEntry > > itAtMax’
87 | auto itAtMax = trace.rbegin() + (trace.size() - 1 - maxPos);
| ^~~~~~~
make: *** [obj/trace.o] Error 1
Thanks,
Consider dropping lib/libxavier.a
from the codebase since it's a binary.
The syntax on this line
if(? != VectorRegister::VECTORWIDTH)
is unfamiliar to me and also unfamiliar to both GCC 9.3.0 and clang 10.0.0.
It looks as though there's missing code here. This prevents XAVIER from compiling.
If (read length < VECTORLENGTH).
Hi!
The omp dependency in benchmark/utils.h is unnecessary ;)
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