Compilation error with gcc 13.1.0 from conda-forge
Closed this issue · 1 comments
sapetnioc commented
I recently noticed the following errors when trying a compile using Conda. I did not check yet the appropriate solution. I could be either to fix the code or to use a different gcc version (of course I am a priori in favour of the first solution):
In file included from /home/yann/dev/casaconda/src/soma-io/src/somamif/image/mifimagereader.cc:35:
/home/yann/dev/casaconda/build/include/soma-io/image/mifimagereader_d.h: In function 'std::vector<long unsigned int> {anonymous}::argsort_abs(const SequenceT&)':
/home/yann/dev/casaconda/build/include/soma-io/image/mifimagereader_d.h:334:44: error: use of 'auto' in lambda parameter declaration only available with '-std=c++14' or '-std=gnu++14'
334 | std::sort(begin(ret), end(ret), [values](auto a, auto b) -> bool {
| ^~~~
/home/yann/dev/casaconda/build/include/soma-io/image/mifimagereader_d.h:334:52: error: use of 'auto' in lambda parameter declaration only available with '-std=c++14' or '-std=gnu++14'
334 | std::sort(begin(ret), end(ret), [values](auto a, auto b) -> bool {
| ^~~~
/home/yann/dev/casaconda/build/include/soma-io/image/mifimagereader_d.h: In member function 'void carto::MifImageReader<T>::readType(T*, carto::DataSourceInfo&, std::vector<int>&, std::vector<int>&, std::vector<long int>&, carto::Object)':
/home/yann/dev/casaconda/build/include/soma-io/image/mifimagereader_d.h:470:75: error: use of 'auto' in lambda parameter declaration only available with '-std=c++14' or '-std=gnu++14'
470 | std::size_t dest_size = std::accumulate(begin(size), end(size), 1, [](auto a, auto b) { return a*b; });
| ^~~~
/home/yann/dev/casaconda/build/include/soma-io/image/mifimagereader_d.h:470:83: error: use of 'auto' in lambda parameter declaration only available with '-std=c++14' or '-std=gnu++14'
470 | std::size_t dest_size = std::accumulate(begin(size), end(size), 1, [](auto a, auto b) { return a*b; });
| ^~~~
/home/yann/dev/casaconda/build/include/soma-io/image/mifimagereader_d.h: In member function 'void carto::MifImageReader<T>::readBitwise(uint8_t*, carto::DataSourceInfo&, std::vector<int>&, std::vector<int>&, std::vector<long int>&, carto::Object)':
/home/yann/dev/casaconda/build/include/soma-io/image/mifimagereader_d.h:589:75: error: use of 'auto' in lambda parameter declaration only available with '-std=c++14' or '-std=gnu++14'
589 | std::size_t dest_size = std::accumulate(begin(size), end(size), 1, [](auto a, auto b) { return a*b; });
| ^~~~
/home/yann/dev/casaconda/build/include/soma-io/image/mifimagereader_d.h:589:83: error: use of 'auto' in lambda parameter declaration only available with '-std=c++14' or '-std=gnu++14'
589 | std::size_t dest_size = std::accumulate(begin(size), end(size), 1, [](auto a, auto b) { return a*b; });
| ^~~~
make[2]: *** [build_files/soma-io/src/somamif/CMakeFiles/somamif.dir/build.make:90 : build_files/soma-io/src/somamif/CMakeFiles/somamif.dir/image/mifimagereader.cc.o] Erreur 1
[ 91%] Building CXX object build_files/aims-free/aimsdata/src/aimsdata/CMakeFiles/aimsdata.dir/io/reader_motion.cc.o
In file included from /home/yann/dev/casaconda/src/aims-free/aimsdata/src/aimsdata/io/fileFormat_volume.cc:49:
/home/yann/dev/casaconda/build/include/aims/io/fileFormat_cartovolume_d.h: In member function 'virtual carto::VolumeRef<T>* aims::VolumeRefAimsFormat<T>::read(const std::string&, const carto::AllocatorContext&, carto::Object)':
/home/yann/dev/casaconda/build/include/aims/io/fileFormat_cartovolume_d.h:272:36: error: expected type-specifier
272 | carto::VolumeRef<T> *vol = new carto::VolumeRef( r.read() );
| ^~~~~
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:195:42: error: 'unordered_map' does not name a type
195 | string get_unique_mif_header_field(const unordered_map<string, vector<string>> &raw_header,
| ^~~~~~~~~~~~~
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:195:55: error: expected ',' or '...' before '<' token
195 | string get_unique_mif_header_field(const unordered_map<string, vector<string>> &raw_header,
| ^
In file included from /home/yann/dev/casaconda/src/aims-free/aimsdata/src/aimsdata/io/fileFormat_volumeVec.cc:50:
/home/yann/dev/casaconda/build/include/aims/io/fileFormat_cartovolume_d.h: In member function 'virtual carto::VolumeRef<T>* aims::VolumeRefAimsFormat<T>::read(const std::string&, const carto::AllocatorContext&, carto::Object)':
/home/yann/dev/casaconda/build/include/aims/io/fileFormat_cartovolume_d.h:272:36: error: expected type-specifier
272 | carto::VolumeRef<T> *vol = new carto::VolumeRef( r.read() );
| ^~~~~
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc: In function 'std::string {anonymous}::get_unique_mif_header_field(int)':
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:198:20: error: 'raw_header' was not declared in this scope; did you mean 'gz_header'?
198 | auto header_it = raw_header.find(field_name);
| ^~~~~~~~~~
| gz_header
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:198:36: error: 'field_name' was not declared in this scope
198 | auto header_it = raw_header.find(field_name);
| ^~~~~~~~~~
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:201:33: error: 'filename' was not declared in this scope; did you mean 'rename'?
201 | filename );
| ^~~~~~~~
| rename
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:205:33: error: 'filename' was not declared in this scope; did you mean 'rename'?
205 | filename );
| ^~~~~~~~
| rename
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc: At global scope:
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:242:51: error: 'unordered_map' does not name a type
242 | vector<Element> parse_comma_separated_field(const unordered_map<string, vector<string>> &raw_header,
| ^~~~~~~~~~~~~
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:242:64: error: expected ',' or '...' before '<' token
242 | vector<Element> parse_comma_separated_field(const unordered_map<string, vector<string>> &raw_header,
| ^
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc: In function 'std::vector<T> {anonymous}::parse_comma_separated_field(int)':
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:245:50: error: 'raw_header' was not declared in this scope; did you mean 'gz_header'?
245 | string raw_value = get_unique_mif_header_field(raw_header, field_name, filename);
| ^~~~~~~~~~
| gz_header
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:245:62: error: 'field_name' was not declared in this scope
245 | string raw_value = get_unique_mif_header_field(raw_header, field_name, filename);
| ^~~~~~~~~~
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:245:74: error: 'filename' was not declared in this scope; did you mean 'rename'?
245 | string raw_value = get_unique_mif_header_field(raw_header, field_name, filename);
| ^~~~~~~~
| rename
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc: In member function 'carto::Object carto::MifFormatChecker::_buildHeader(carto::DataSource&) const':
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:309:3: error: 'unordered_map' was not declared in this scope
309 | unordered_map<string, vector<string>> raw_header;
| ^~~~~~~~~~~~~
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:59:1: note: 'std::unordered_map' is defined in header '<unordered_map>'; did you forget to '#include <unordered_map>'?
58 | #include <cartobase/config/verbose.h>
+++ |+#include <unordered_map>
59 | #define localMsg( message ) cartoCondMsg( 4, message, "MIFFORMATCHECKER" )
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:309:23: error: expected primary-expression before ',' token
309 | unordered_map<string, vector<string>> raw_header;
| ^
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:309:38: error: expected primary-expression before '>' token
309 | unordered_map<string, vector<string>> raw_header;
| ^~
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:309:41: error: 'raw_header' was not declared in this scope; did you mean 'gz_header'?
309 | unordered_map<string, vector<string>> raw_header;
| ^~~~~~~~~~
| gz_header
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:353:32: error: 'rbegin' was not declared in this scope; did you mean 'boost::rbegin'?
353 | auto last_space_it = find_if(rbegin(file_and_offset), rend(file_and_offset),
| ^~~~~~
| boost::rbegin
In file included from /home/yann/dev/casaconda/conda/include/boost/range/functions.hpp:23,
from /home/yann/dev/casaconda/conda/include/boost/range/iterator_range_core.hpp:38,
from /home/yann/dev/casaconda/conda/include/boost/range/iterator_range.hpp:13,
from /home/yann/dev/casaconda/conda/include/boost/range/as_literal.hpp:18,
from /home/yann/dev/casaconda/conda/include/boost/algorithm/string/trim.hpp:19,
from /home/yann/dev/casaconda/conda/include/boost/algorithm/string.hpp:19,
from /home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:56:
/home/yann/dev/casaconda/conda/include/boost/range/rbegin.hpp:35:1: note: 'boost::rbegin' declared here
35 | rbegin( const C& c )
| ^~~~~~
/home/yann/dev/casaconda/src/soma-io/src/somamif/checker/mifformatchecker.cc:353:57: error: 'rend' was not declared in this scope; did you mean 'boost::rend'?
353 | auto last_space_it = find_if(rbegin(file_and_offset), rend(file_and_offset),
| ^~~~
| boost::rend
In file included from /home/yann/dev/casaconda/conda/include/boost/range/functions.hpp:24:
/home/yann/dev/casaconda/conda/include/boost/range/rend.hpp:35:1: note: 'boost::rend' declared here
35 | rend( const C& c )
| ^~~~
make[2]: *** [build_files/soma-io/src/somamif/CMakeFiles/somamif.dir/build.make:76 : build_files/soma-io/src/somamif/CMakeFiles/somamif.dir/checker/mifformatchecker.cc.o] Erreur 1
make[2]: La cible « build_files/soma-io/src/somamif/CMakeFiles/somamif.dir/build » n'a pas été refabriquée à cause d'erreurs.
sapetnioc commented
Following @denisri advice, I had a look into distribution specific CMake code in brainvisa-cmake project. The two following lines are defined specifically for Ubuntu 22.04:
set(CMAKE_CXX_STANDARD 17)
set(CMAKE_CXX_STANDARD_REQUIRED ON)
Including them to conda.cmake solves the problem. Therefore I will close this issue and open one in brainvisa-cmake to discuss the good way to resolve the issue.