[SCIP] pyscipopt installation query

[Welma]

Dear Jonas,

Here is some additional information but I am not sure if this influences
the installation of pyscipopt.
I am doing the installation in linux ubuntu.
When installing the SCIP suite after the build configuration stage, I
proceeded with the SCIP compilation process. It is in this stage that I
noted the following warning:

[ 7%] Building Fortran object
papilo/CMakeFiles/clusol.dir/src/papilo/external/lusol/src/lusol_precision.f90.o

f951: Warning: Nonexistent include directory
‘/home/welma/Documents/scipoptsuite-8.0.3/papilo/external’
[-Wmissing-include-dirs]

[ 7%] Building Fortran object
papilo/CMakeFiles/clusol.dir/src/papilo/external/lusol/src/lusol.f90.o

f951: Warning: Nonexistent include directory
‘/home/welma/Documents/scipoptsuite-8.0.3/papilo/external’
[-Wmissing-include-dirs]

[ 8%] Building Fortran object
papilo/CMakeFiles/clusol.dir/src/papilo/external/lusol/src/lusol6b.f.o

f951: Warning: Nonexistent include directory
‘/home/welma/Documents/scipoptsuite-8.0.3/papilo/external’
[-Wmissing-include-dirs]

[ 8%] Building Fortran object
papilo/CMakeFiles/clusol.dir/src/papilo/external/lusol/src/lusol7b.f.o

f951: Warning: Nonexistent include directory
‘/home/welma/Documents/scipoptsuite-8.0.3/papilo/external’
[-Wmissing-include-dirs]

[ 8%] Building Fortran object
papilo/CMakeFiles/clusol.dir/src/papilo/external/lusol/src/lusol8b.f.o

f951: Warning: Nonexistent include directory
‘/home/welma/Documents/scipoptsuite-8.0.3/papilo/external’
[-Wmissing-include-dirs]

[ 8%] Building Fortran object
papilo/CMakeFiles/clusol.dir/src/papilo/external/lusol/src/lusol_util.f.o

f951: Warning: Nonexistent include directory
‘/home/welma/Documents/scipoptsuite-8.0.3/papilo/external’
[-Wmissing-include-dirs]


It was then followed by this after a few seconds. I appears severally
whenever this appears "Building CXX object
scip/src/CMakeFiles/libscip.dir/scip/presol_milp.cpp.o"


In file included from /usr/include/string.h:535,

from /usr/include/c++/11/cstring:42,

from /usr/include/boost/container_hash/detail/hash_float.hpp:21,

from /usr/include/boost/container_hash/hash.hpp:22,

from /usr/include/boost/functional/hash.hpp:6,

from /usr/include/boost/multiprecision/float128.hpp:11,

from
/home/welma/Documents/scipoptsuite-8.0.3/papilo/src/papilo/misc/MultiPrecision.hpp:34,

from
/home/welma/Documents/scipoptsuite-8.0.3/papilo/src/papilo/core/SparseStorage.hpp:27,

from
/home/welma/Documents/scipoptsuite-8.0.3/papilo/src/papilo/core/MatrixBuffer.hpp:27,

from
/home/welma/Documents/scipoptsuite-8.0.3/papilo/test/papilo/core/MatrixBufferTest.cpp:24:

In function ‘void* memmove(void*, const void*, size_t)’,

inlined from ‘F boost::container::dtl::memmove(I, I, F) [with I = int*; F =
int*]’ at /usr/include/boost/container/detail/copy_move_algo.hpp:182:19,

inlined from ‘typename
boost::container::dtl::enable_if_memtransfer_copy_constructible<I, F,
F>::type boost::container::uninitialized_move_alloc(Allocator&, I, I, F)
[with Allocator = boost::container::small_vector_allocator<int,
std::allocator<void>, void>; I = int*; F = int*]’ at
/usr/include/boost/container/detail/copy_move_algo.hpp:320:23,

inlined from ‘void boost::container::vector<T, Allocator,
Options>::priv_forward_range_insert_new_allocation(T*,
boost::container::vector<T, Allocator, Options>::size_type, T*,
boost::container::vector<T, Allocator, Options>::size_type, InsertionProxy)
[with InsertionProxy =
boost::container::dtl::insert_move_proxy<boost::container::small_vector_allocator<int,
std::allocator<void>, void>, int*>; T = int; A =
boost::container::small_vector_allocator<int, std::allocator<void>, void>;
Options = void]’ at /usr/include/boost/container/vector.hpp:2999:13,

inlined from ‘boost::container::vector<T, Allocator, Options>::iterator
boost::container::vector<T, Allocator,
Options>::priv_forward_range_insert_no_capacity(const pointer&,
boost::container::vector<T, Allocator, Options>::size_type, InsertionProxy,
boost::container::version_1) [with InsertionProxy =
boost::container::dtl::insert_move_proxy<boost::container::small_vector_allocator<int,
std::allocator<void>, void>, int*>; T = int; A =
boost::container::small_vector_allocator<int, std::allocator<void>, void>;
Options = void]’ at /usr/include/boost/container/vector.hpp:2732:10,

inlined from ‘void boost::container::vector<T, Allocator,
Options>::priv_push_back(U&&) [with U = int; T = int; A =
boost::container::small_vector_allocator<int, std::allocator<void>, void>;
Options = void]’ at /usr/include/boost/container/vector.hpp:2625:10,

inlined from ‘void boost::container::vector<T, Allocator,
Options>::push_back(T&&) [with T = int; A =
boost::container::small_vector_allocator<int, std::allocator<void>, void>;
Options = void]’ at /usr/include/boost/container/vector.hpp:1876:4,

inlined from ‘const papilo::MatrixEntry<REAL>*
papilo::MatrixBuffer<REAL>::begin(papilo::SmallVec<int, 32>&) const [with
bool RowMajor = false; REAL = double]’ at
/home/welma/Documents/scipoptsuite-8.0.3/papilo/src/papilo/core/MatrixBuffer.hpp:296:22,

inlined from ‘void ____C_A_T_C_H____T_E_S_T____0()’ at
/home/welma/Documents/scipoptsuite-8.0.3/papilo/test/papilo/core/MatrixBufferTest.cpp:155:23:

/usr/include/x86_64-linux-gnu/bits/string_fortified.h:36:34: warning:
‘void* __builtin_memmove(void*, const void*, long unsigned int)’ writing 1
or more bytes into a region of size 0 overflows the destination
[-Wstringop-overflow=]


36 | return __builtin___memmove_chk (__dest, __src, __len,

| ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~

37 | __glibc_objsize0 (__dest));

| ~~~~~~~~~~~~~~~~~~~~~~~~~~

In file included from
/usr/include/x86_64-linux-gnu/c++/11/bits/c++allocator.h:33,

from /usr/include/c++/11/bits/allocator.h:46,

from /usr/include/c++/11/memory:64,

from
/home/welma/Documents/scipoptsuite-8.0.3/papilo/src/papilo/misc/MultiPrecision.hpp:30,

from
/home/welma/Documents/scipoptsuite-8.0.3/papilo/src/papilo/core/SparseStorage.hpp:27,

from
/home/welma/Documents/scipoptsuite-8.0.3/papilo/src/papilo/core/MatrixBuffer.hpp:27,

from
/home/welma/Documents/scipoptsuite-8.0.3/papilo/test/papilo/core/MatrixBufferTest.cpp:24:

/usr/include/c++/11/ext/new_allocator.h: In function ‘void
____C_A_T_C_H____T_E_S_T____0()’:

/usr/include/c++/11/ext/new_allocator.h:127:48: note: at offset 4 into
destination object of size 4 allocated by ‘operator new’

127 | return static_cast<_Tp*>(::operator new(__n * sizeof(_Tp)));

| ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~

/usr/include/c++/11/ext/new_allocator.h:127:48: note: at offset [5, 8] into
destination object of size 4 allocated by ‘operator new’


Is this something I need to sort out first before proceeding to the
pyscipopt installation?


Many thanks.

On Tue, Jun 27, 2023 at 9:42 AM Welma <mogitiwelma at gmail.com> wrote:

> Dear Jonas,
>
> My bad that was a typo error but even with the correction it still gives
> the same error.
>
> Thanks.
>
> On Mon, Jun 26, 2023 at 9:10 PM Jonas Charfreitag <
> jcharfreitag at uni-bonn.de> wrote:
>
>> Dear Welma,
>>
>> just to rule out a simple explanation:
>>
>> At least in the copy of the terminal output in your mail, the SCIPOPTDIR
>> path seems off.
>>
>> SCIPOPTDIR=/Documents/scipoptsuite-8.o.3/ does not contain an include
>> directory; searching for include files in src or ../src directory.
>>
>> The the zero of the scipoptsuite is an o. Is this really the correct path?
>>
>> Best
>> Jonas
>>
>> On 6/26/23 08:57, Welma wrote:
>>
>> Hello SCIP experts,
>>
>> Currently trying to install PySCIPOpt but I am getting the error below.
>> My SCIP installation is working.
>>
>>
>> welma at welma-HP-EliteBook:~$ python3 -m pip install pyscipopt
>> Defaulting to user installation because normal site-packages is not
>> writeable
>> Collecting pyscipopt
>>   Using cached PySCIPOpt-4.3.0.tar.gz (665 kB)
>>   Installing build dependencies ... done
>>   Getting requirements to build wheel ... error
>>   error: subprocess-exited-with-error
>>
>>   × Getting requirements to build wheel did not run successfully.
>>   │ exit code: 1
>>   ╰─> [2 lines of output]
>>       SCIPOPTDIR=/Documents/scipoptsuite-8.o.3/ does not contain an
>> include directory; searching for include files in src or ../src directory.
>>       Could not find a src directory in
>> SCIPOPTDIR=/Documents/scipoptsuite-8.o.3/; maybe it points to a wrong
>> directory.
>>       [end of output]
>>
>>   note: This error originates from a subprocess, and is likely not a
>> problem with pip.
>> error: subprocess-exited-with-error
>>
>> × Getting requirements to build wheel did not run successfully.
>> │ exit code: 1
>> ╰─> See above for output.
>>
>> note: This error originates from a subprocess, and is likely not a
>> problem with pip.
>>
>> Note: In the build process, only the lib subdirectory was created in the
>> build directory.
>> Is the include subdirectory also supposed to be created in the build
>> folder? On searching the header files meant to be in the 'include'
>> subdirectory, they are there but in different folders. Kindly advice on how
>> to solve this error
>>
>> Many thanks.
>>
>> --
>> Regards,
>> Welma Nyabuto
>> Researcher......phd student
>> Gifu University
>>
>>
>> _______________________________________________
>> Scip mailing listScip at zib.dehttps://listserv.zib.de/mailman/listinfo/scip
>>
>> --
>> M.Sc. Jonas Charfreitag
>> Uni Bonn - Institut fuer Informatik - Abteilung 1
>> Friedrich-Hirzebruch-Allee 8 / Room 2.078a
>> 53115 Bonn, Germany
>>
>> e-mail: jcharfreitag at uni-bonn.de
>> web: https://ca.cs.uni-bonn.de/doku.php?id=people:charfreitag
>>
>>
>
> --
> Regards,
> Welma Nyabuto
> Researcher......phd student
> Gifu University
>
>

-- 
Regards,
Welma Nyabuto
Researcher......phd student
Gifu University
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