[Debian-med-packaging] C++ help needed (Was: FYI: New Abyss 2.0 contains undistributable components)

[Andreas Tille]

Hi,

On Wed, Sep 21, 2016 at 03:02:20PM -0700, Shaun Jackman wrote:
> Hi, Andreas. ABySS 2.0.1 is now GPL-3 without the non-commercial
> restriction!
> 
> https://github.com/bcgsc/abyss/releases

I tried to build the latest version of ABySS.  Its commited to packaging
Git[1] but does not build with the current gcc in Debian unstable:

...
g++ -DHAVE_CONFIG_H -I. -I..  -I.. -I../lib/gtest-1.7.0/include -I../DataLayer -I../Common -I/build/abyss-2.0.1  -isystem/usr/lib/openmpi/include   -Wdate-time -D_FORTIFY_SOURCE=2 -isystem/build/abyss-2.0.1/boost_1_56_0 -Wall -Wextra -pthread -Wno-error -fopenmp -g -O2 -fdebug-prefix-map=/build/abyss-2.0.1=. -fstack-protector-strong -Wformat -Werror=format-security -c -o DBG/DBG_LoadAlgorithm-LoadAlgorithmTest.o `test -f 'DBG/LoadAlgorithmTest.cpp' || echo './'`DBG/LoadAlgorithmTest.cpp
In file included from ../lib/gtest-1.7.0/include/gtest/internal/gtest-internal.h:40:0,
                 from ../lib/gtest-1.7.0/include/gtest/gtest.h:58,
                 from DBG/LoadAlgorithmTest.cpp:7:
../lib/gtest-1.7.0/include/gtest/internal/gtest-port.h:557:14: error: 'tuple' is already declared in this scope
 using ::std::tuple;
              ^~~~~
../lib/gtest-1.7.0/include/gtest/internal/gtest-port.h:558:14: error: 'tuple_element' is already declared in this scope
 using ::std::tuple_element;
              ^~~~~~~~~~~~~
../lib/gtest-1.7.0/include/gtest/internal/gtest-port.h:559:14: error: 'tuple_size' is already declared in this scope
 using ::std::tuple_size;
              ^~~~~~~~~~
Makefile:1272: recipe for target 'DBG/DBG_LoadAlgorithm-LoadAlgorithmTest.o' failed
make[3]: *** [DBG/DBG_LoadAlgorithm-LoadAlgorithmTest.o] Error 1
make[3]: Leaving directory '/build/abyss-2.0.1/Unittest'


May be this is also connected to some gtest issue.

Any hint?

Kind regards

       Andreas.

[1] https://anonscm.debian.org/git/debian-med/abyss.git

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