science/openbabel
Chemistry file translation program
| Flavor |
Version |
Run |
OSVersion |
Arch |
License |
Restricted |
Status |
|
|
2.3.2 |
349 |
1.1 |
amd64 |
gpl2 |
0 |
fail |
|
Events
| Machine |
Type |
Time |
Message |
| defiant |
info |
2018-11-27 19:03:23.166321 |
Test Started |
| defiant |
fail |
2018-11-27 19:04:49.333639 |
make build returned non-zero: 1 |
| defiant |
fail |
2018-11-27 19:04:49.421863 |
Test complete. |
Log
[1m===> Building for openbabel-2.3.2[0m
[1/500] Building CXX object src/CMakeFiles/openbabel.dir/format.o
[2/500] Building CXX object src/CMakeFiles/openbabel.dir/base.o
[3/500] Building CXX object src/CMakeFiles/openbabel.dir/bitvec.o
[4/500] Building CXX object src/CMakeFiles/openbabel.dir/chargemodel.o
[5/500] Building CXX object src/CMakeFiles/openbabel.dir/fingerprint.o
/magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/src/fingerprint.cpp:161:48: warning: unsequenced modification and access to 'ppat' [-Wunsequenced]
if ( (a=((*ppat) & (*p++)) ^ (*ppat++)) ) break;
~~~~ ^
1 warning generated.
[6/500] Building CXX object src/CMakeFiles/openbabel.dir/descriptor.o
[7/500] Building CXX object src/CMakeFiles/openbabel.dir/alias.o
FAILED: src/CMakeFiles/openbabel.dir/alias.o
/usr/bin/c++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -Iinclude -I/magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/data -I/magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/include -I/usr/local/include/eigen3 -O2 -pipe -fno-strict-aliasing -O2 -pipe -fno-strict-aliasing -fPIC -DOB_MODULE_PATH="\"/usr/local/lib/openbabel/2.3.2\"" -MD -MT src/CMakeFiles/openbabel.dir/alias.o -MF src/CMakeFiles/openbabel.dir/alias.o.d -o src/CMakeFiles/openbabel.dir/alias.o -c /magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/src/alias.cpp
In file included from /magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/src/alias.cpp:17:
In file included from /magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/include/openbabel/alias.h:19:
/magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/include/openbabel/shared_ptr.h:27:14: error: no member named 'tr1' in namespace 'std'
using std::tr1::shared_ptr;
~~~~~^
In file included from /magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/src/alias.cpp:17:
/magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/include/openbabel/alias.h:118:47: error: no template named 'shared_ptr'; did you mean 'std::shared_ptr'?
typedef std::vector< std::pair > > SmartsTable;
^~~~~~~~~~
std::shared_ptr
/usr/include/c++/v1/memory:3760:29: note: 'std::shared_ptr' declared here
class _LIBCPP_TYPE_VIS_ONLY shared_ptr
^
2 errors generated.
[8/500] Building CXX object src/CMakeFiles/openbabel.dir/bond.o
[9/500] Building CXX object src/CMakeFiles/openbabel.dir/bondtyper.o
[10/500] Building CXX object src/CMakeFiles/openbabel.dir/chiral.o
[11/500] Building CXX object src/CMakeFiles/openbabel.dir/generic.o
FAILED: src/CMakeFiles/openbabel.dir/generic.o
/usr/bin/c++ -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_SHARED_POINTER -DMAKE_OBDLL -DUSING_DYNAMIC_LIBS -Iinclude -I/magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/data -I/magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/include -I/usr/local/include/eigen3 -O2 -pipe -fno-strict-aliasing -O2 -pipe -fno-strict-aliasing -fPIC -DOB_MODULE_PATH="\"/usr/local/lib/openbabel/2.3.2\"" -MD -MT src/CMakeFiles/openbabel.dir/generic.o -MF src/CMakeFiles/openbabel.dir/generic.o.d -o src/CMakeFiles/openbabel.dir/generic.o -c /magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/src/generic.cpp
In file included from /magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/src/generic.cpp:30:
In file included from /magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/include/openbabel/alias.h:19:
/magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/include/openbabel/shared_ptr.h:27:14: error: no member named 'tr1' in namespace 'std'
using std::tr1::shared_ptr;
~~~~~^
In file included from /magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/src/generic.cpp:30:
/magus/work/usr/mports/science/openbabel/work/openbabel-2.3.2/include/openbabel/alias.h:118:47: error: no template named 'shared_ptr'; did you mean 'std::shared_ptr'?
typedef std::vector< std::pair > > SmartsTable;
^~~~~~~~~~
std::shared_ptr
/usr/include/c++/v1/memory:3760:29: note: 'std::shared_ptr' declared here
class _LIBCPP_TYPE_VIS_ONLY shared_ptr
^
2 errors generated.
[12/500] Building CXX object src/CMakeFiles/openbabel.dir/chains.o
[13/500] Building CXX object src/CMakeFiles/openbabel.dir/data.o
[14/500] Building CXX object src/CMakeFiles/openbabel.dir/atom.o
[15/500] Building CXX object src/CMakeFiles/openbabel.dir/griddata.o
[16/500] Building CXX object src/CMakeFiles/openbabel.dir/graphsym.o
[17/500] Building CXX object src/CMakeFiles/openbabel.dir/grid.o
[18/500] Building CXX object src/CMakeFiles/openbabel.dir/isomorphism.o
[19/500] Building CXX object src/CMakeFiles/openbabel.dir/builder.o
[20/500] Building CXX object src/CMakeFiles/openbabel.dir/kekulize.o
[21/500] Building CXX object src/CMakeFiles/openbabel.dir/forcefield.o
[22/500] Building CXX object src/CMakeFiles/openbabel.dir/canon.o
ninja: build stopped: subcommand failed.
===> Compilation failed unexpectedly.
Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to
the maintainer.
*** Error code 1
Stop.
make: stopped in /usr/mports/science/openbabel