2019-10-16T09:08:47 Created temporary directory: /tmp/pip-ephem-wheel-cache-dargkhew 2019-10-16T09:08:47 Created temporary directory: /tmp/pip-req-tracker-kn32smos 2019-10-16T09:08:47 Created requirements tracker '/tmp/pip-req-tracker-kn32smos' 2019-10-16T09:08:47 Created temporary directory: /tmp/pip-wheel-xlo4j3pp 2019-10-16T09:08:47 Collecting amlearn==0.2.1 2019-10-16T09:08:47 1 location(s) to search for versions of amlearn: 2019-10-16T09:08:47 * https://pypi.org/simple/amlearn/ 2019-10-16T09:08:47 Getting page https://pypi.org/simple/amlearn/ 2019-10-16T09:08:47 Analyzing links from page https://pypi.org/simple/amlearn/ 2019-10-16T09:08:47 Found link https://files.pythonhosted.org/packages/5b/37/b16f0e09d837e63766331f1e212eccd32b46da07fa38269be86c0908c613/amlearn-0.0.1rc1.tar.gz#sha256=3feb0259f07d515171eb3f5dbcd60a40a90a2c04b9114be537d617d1df4addee (from https://pypi.org/simple/amlearn/), version: 0.0.1rc1 2019-10-16T09:08:47 Found link https://files.pythonhosted.org/packages/c9/69/69f3bd8acf04b6af467a52a212de838bf9cc412724b0197b1523b8703808/amlearn-0.1.0.tar.gz#sha256=20a099bc7da2324c247c1f5bd4c61cbf207ad59248a0c161fac0a08d11112f36 (from https://pypi.org/simple/amlearn/), version: 0.1.0 2019-10-16T09:08:47 Found link https://files.pythonhosted.org/packages/d8/26/d78c59d9be85d65e5fae532c317c98f8dc8184831f66a0ae50fc6099e23d/amlearn-0.2.0.tar.gz#sha256=02a6393944cbf8a784db0d554708f37a035c9203518531e46e870bc1453cef7f (from https://pypi.org/simple/amlearn/), version: 0.2.0 2019-10-16T09:08:47 Found link https://files.pythonhosted.org/packages/bb/91/5d7bc08da68c418d6a61ba40238d065acafeff63ecd5c802d6bff7790aba/amlearn-0.2.1.tar.gz#sha256=036b1f5f9152145124dc681a3345d518f374c1a8785f602addf4bc27494917f3 (from https://pypi.org/simple/amlearn/), version: 0.2.1 2019-10-16T09:08:47 Using version 0.2.1 (newest of versions: 0.2.1) 2019-10-16T09:08:47 Created temporary directory: /tmp/pip-unpack-6jj57s5l 2019-10-16T09:08:48 Downloading https://files.pythonhosted.org/packages/bb/91/5d7bc08da68c418d6a61ba40238d065acafeff63ecd5c802d6bff7790aba/amlearn-0.2.1.tar.gz (82kB) 2019-10-16T09:08:48 Downloading from URL https://files.pythonhosted.org/packages/bb/91/5d7bc08da68c418d6a61ba40238d065acafeff63ecd5c802d6bff7790aba/amlearn-0.2.1.tar.gz#sha256=036b1f5f9152145124dc681a3345d518f374c1a8785f602addf4bc27494917f3 (from https://pypi.org/simple/amlearn/) 2019-10-16T09:08:48 Added amlearn==0.2.1 from https://files.pythonhosted.org/packages/bb/91/5d7bc08da68c418d6a61ba40238d065acafeff63ecd5c802d6bff7790aba/amlearn-0.2.1.tar.gz#sha256=036b1f5f9152145124dc681a3345d518f374c1a8785f602addf4bc27494917f3 to build tracker '/tmp/pip-req-tracker-kn32smos' 2019-10-16T09:08:48 Running setup.py (path:/tmp/pip-wheel-xlo4j3pp/amlearn/setup.py) egg_info for package amlearn 2019-10-16T09:08:48 Running command python setup.py egg_info 2019-10-16T09:08:54 running egg_info 2019-10-16T09:08:54 running build_src 2019-10-16T09:08:54 build_src 2019-10-16T09:08:54 building extension "amlearn.featurize.src.utils" sources 2019-10-16T09:08:54 f2py options: [] 2019-10-16T09:08:54 f2py:> build/src.linux-armv7l-3.7/amlearn/featurize/src/utilsmodule.c 2019-10-16T09:08:54 creating build 2019-10-16T09:08:54 creating build/src.linux-armv7l-3.7 2019-10-16T09:08:54 creating build/src.linux-armv7l-3.7/amlearn 2019-10-16T09:08:54 creating build/src.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:08:54 creating build/src.linux-armv7l-3.7/amlearn/featurize/src 2019-10-16T09:08:55 Reading fortran codes... 2019-10-16T09:08:55 Reading file 'amlearn/featurize/src/utils.f90' (format:free) 2019-10-16T09:08:55 Post-processing... 2019-10-16T09:08:55 Block: utils 2019-10-16T09:08:55 Block: determinant_func 2019-10-16T09:08:55 Block: determinant 2019-10-16T09:08:55 Block: distance 2019-10-16T09:08:55 Block: distance_info 2019-10-16T09:08:55 Block: quicksort 2019-10-16T09:08:55 Block: quick_sort 2019-10-16T09:08:55 Block: cg_function 2019-10-16T09:08:55 Block: calculate_cg 2019-10-16T09:08:55 Block: angle 2019-10-16T09:08:55 Block: angle_info 2019-10-16T09:08:55 Block: c_stats 2019-10-16T09:08:55 Block: customize_stats 2019-10-16T09:08:55 Block: a_stats 2019-10-16T09:08:55 Block: all_stats 2019-10-16T09:08:55 Post-processing (stage 2)... 2019-10-16T09:08:55 Block: utils 2019-10-16T09:08:55 Block: unknown_interface 2019-10-16T09:08:55 Block: determinant_func 2019-10-16T09:08:55 Block: determinant 2019-10-16T09:08:55 Block: distance 2019-10-16T09:08:55 Block: distance_info 2019-10-16T09:08:55 Block: quicksort 2019-10-16T09:08:55 Block: quick_sort 2019-10-16T09:08:55 Block: cg_function 2019-10-16T09:08:55 Block: calculate_cg 2019-10-16T09:08:55 Block: angle 2019-10-16T09:08:55 Block: angle_info 2019-10-16T09:08:55 Block: c_stats 2019-10-16T09:08:55 Block: customize_stats 2019-10-16T09:08:55 Block: a_stats 2019-10-16T09:08:55 Block: all_stats 2019-10-16T09:08:55 Building modules... 2019-10-16T09:08:55 Building module "utils"... 2019-10-16T09:08:55 Constructing F90 module support for "determinant_func"... 2019-10-16T09:08:55 Constructing wrapper function "determinant_func.determinant"... 2019-10-16T09:08:55 deter_value = determinant(matrix) 2019-10-16T09:08:55 Constructing F90 module support for "distance"... 2019-10-16T09:08:55 Constructing wrapper function "distance.distance_info"... 2019-10-16T09:08:55 r,d = distance_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:08:55 Constructing F90 module support for "quicksort"... 2019-10-16T09:08:55 Creating wrapper for Fortran subroutine "quick_sort"("quick_sort")... 2019-10-16T09:08:55 Constructing wrapper function "quicksort.quick_sort"... 2019-10-16T09:08:55 quick_sort(array,sort_col,sort_index_min,sort_index_max) 2019-10-16T09:08:55 Constructing F90 module support for "cg_function"... 2019-10-16T09:08:55 Creating wrapper for Fortran function "calculate_cg"("calculate_cg")... 2019-10-16T09:08:55 Constructing wrapper function "cg_function.calculate_cg"... 2019-10-16T09:08:55 cg = calculate_cg(half_l_min,half_l_max) 2019-10-16T09:08:55 Constructing F90 module support for "angle"... 2019-10-16T09:08:55 Constructing wrapper function "angle.angle_info"... 2019-10-16T09:08:55 ksai,theta = angle_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:08:55 Constructing F90 module support for "c_stats"... 2019-10-16T09:08:55 Creating wrapper for Fortran function "customize_stats"("customize_stats")... 2019-10-16T09:08:55 Constructing wrapper function "c_stats.customize_stats"... 2019-10-16T09:08:55 stats = customize_stats(list,stats_types,stats_types_sum,self_prop) 2019-10-16T09:08:55 Constructing F90 module support for "a_stats"... 2019-10-16T09:08:55 Creating wrapper for Fortran function "all_stats"("all_stats")... 2019-10-16T09:08:55 Constructing wrapper function "a_stats.all_stats"... 2019-10-16T09:08:55 stats = all_stats(list,[len_bn]) 2019-10-16T09:08:55 Wrote C/API module "utils" to file "build/src.linux-armv7l-3.7/amlearn/featurize/src/utilsmodule.c" 2019-10-16T09:08:55 Fortran 90 wrappers are saved to "build/src.linux-armv7l-3.7/amlearn/featurize/src/utils-f2pywrappers2.f90" 2019-10-16T09:08:55 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:08:55 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:08:55 creating build/src.linux-armv7l-3.7/build 2019-10-16T09:08:55 creating build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7 2019-10-16T09:08:55 creating build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn 2019-10-16T09:08:55 creating build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:08:55 creating build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src 2019-10-16T09:08:55 copying /usr/lib/python3/dist-packages/numpy/f2py/src/fortranobject.c -> build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src 2019-10-16T09:08:55 copying /usr/lib/python3/dist-packages/numpy/f2py/src/fortranobject.h -> build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src 2019-10-16T09:08:55 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/utils-f2pywrappers2.f90' to sources. 2019-10-16T09:08:55 building extension "amlearn.featurize.src.voronoi_nn" sources 2019-10-16T09:08:55 f2py options: [] 2019-10-16T09:08:55 f2py:> build/src.linux-armv7l-3.7/amlearn/featurize/src/voronoi_nnmodule.c 2019-10-16T09:08:57 Reading fortran codes... 2019-10-16T09:08:57 Reading file 'amlearn/featurize/src/voronoi_nn.f90' (format:free) 2019-10-16T09:08:57 {'before': '', 'this': 'use', 'after': ':: distance '} 2019-10-16T09:08:57 Line #49 in amlearn/featurize/src/voronoi_nn.f90:" use :: distance " 2019-10-16T09:08:57 analyzeline: Could not crack the use statement. 2019-10-16T09:08:57 Reading file 'amlearn/featurize/src/utils.f90' (format:free) 2019-10-16T09:08:57 Post-processing... 2019-10-16T09:08:57 Block: voronoi_nn 2019-10-16T09:08:57 Block: determinant 2019-10-16T09:08:57 Block: voronoi 2019-10-16T09:08:57 Block: determinant_func 2019-10-16T09:08:57 Block: determinant 2019-10-16T09:08:57 Block: distance 2019-10-16T09:08:57 Block: distance_info 2019-10-16T09:08:57 Block: quicksort 2019-10-16T09:08:57 Block: quick_sort 2019-10-16T09:08:57 Block: cg_function 2019-10-16T09:08:57 Block: calculate_cg 2019-10-16T09:08:57 Block: angle 2019-10-16T09:08:57 Block: angle_info 2019-10-16T09:08:57 Block: c_stats 2019-10-16T09:08:57 Block: customize_stats 2019-10-16T09:08:57 Block: a_stats 2019-10-16T09:08:57 Block: all_stats 2019-10-16T09:08:57 Post-processing (stage 2)... 2019-10-16T09:08:57 Block: voronoi_nn 2019-10-16T09:08:57 Block: unknown_interface 2019-10-16T09:08:57 Block: determinant 2019-10-16T09:08:57 Block: voronoi 2019-10-16T09:08:57 Block: determinant_func 2019-10-16T09:08:57 Block: determinant 2019-10-16T09:08:57 Block: distance 2019-10-16T09:08:57 Block: distance_info 2019-10-16T09:08:57 Block: quicksort 2019-10-16T09:08:57 Block: quick_sort 2019-10-16T09:08:57 Block: cg_function 2019-10-16T09:08:57 Block: calculate_cg 2019-10-16T09:08:57 Block: angle 2019-10-16T09:08:57 Block: angle_info 2019-10-16T09:08:57 Block: c_stats 2019-10-16T09:08:57 Block: customize_stats 2019-10-16T09:08:57 Block: a_stats 2019-10-16T09:08:57 Block: all_stats 2019-10-16T09:08:57 Building modules... 2019-10-16T09:08:57 Building module "voronoi_nn"... 2019-10-16T09:08:57 Constructing wrapper function "determinant"... 2019-10-16T09:08:57 deter_value = determinant(face) 2019-10-16T09:08:57 Constructing wrapper function "voronoi"... 2019-10-16T09:08:57 n_neighbor_list,neighbor_lists,neighbor_area_lists,neighbor_vol_lists,neighbor_distance_lists,neighbor_edge_lists,n_neighbor_max,n_edge_max = voronoi(atom_type,atom_coords,cutoff,allow_neighbor_limit,small_face_thres,pbc,bds,n_neighbor_list,neighbor_lists,neighbor_area_lists,neighbor_vol_lists,neighbor_distance_lists,neighbor_edge_lists,n_neighbor_max,n_edge_max,[n_atoms,n_neighbor_limit]) 2019-10-16T09:08:57 Constructing F90 module support for "determinant_func"... 2019-10-16T09:08:57 Constructing wrapper function "determinant_func.determinant"... 2019-10-16T09:08:57 deter_value = determinant(matrix) 2019-10-16T09:08:57 Constructing F90 module support for "distance"... 2019-10-16T09:08:57 Constructing wrapper function "distance.distance_info"... 2019-10-16T09:08:57 r,d = distance_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:08:57 Constructing F90 module support for "quicksort"... 2019-10-16T09:08:57 Creating wrapper for Fortran subroutine "quick_sort"("quick_sort")... 2019-10-16T09:08:57 Constructing wrapper function "quicksort.quick_sort"... 2019-10-16T09:08:57 quick_sort(array,sort_col,sort_index_min,sort_index_max) 2019-10-16T09:08:57 Constructing F90 module support for "cg_function"... 2019-10-16T09:08:57 Creating wrapper for Fortran function "calculate_cg"("calculate_cg")... 2019-10-16T09:08:57 Constructing wrapper function "cg_function.calculate_cg"... 2019-10-16T09:08:57 cg = calculate_cg(half_l_min,half_l_max) 2019-10-16T09:08:57 Constructing F90 module support for "angle"... 2019-10-16T09:08:57 Constructing wrapper function "angle.angle_info"... 2019-10-16T09:08:57 ksai,theta = angle_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:08:57 Constructing F90 module support for "c_stats"... 2019-10-16T09:08:57 Creating wrapper for Fortran function "customize_stats"("customize_stats")... 2019-10-16T09:08:57 Constructing wrapper function "c_stats.customize_stats"... 2019-10-16T09:08:57 stats = customize_stats(list,stats_types,stats_types_sum,self_prop) 2019-10-16T09:08:57 Constructing F90 module support for "a_stats"... 2019-10-16T09:08:57 Creating wrapper for Fortran function "all_stats"("all_stats")... 2019-10-16T09:08:57 Constructing wrapper function "a_stats.all_stats"... 2019-10-16T09:08:57 stats = all_stats(list,[len_bn]) 2019-10-16T09:08:57 Wrote C/API module "voronoi_nn" to file "build/src.linux-armv7l-3.7/amlearn/featurize/src/voronoi_nnmodule.c" 2019-10-16T09:08:57 Fortran 90 wrappers are saved to "build/src.linux-armv7l-3.7/amlearn/featurize/src/voronoi_nn-f2pywrappers2.f90" 2019-10-16T09:08:57 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:08:57 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:08:57 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/voronoi_nn-f2pywrappers2.f90' to sources. 2019-10-16T09:08:57 building extension "amlearn.featurize.src.voronoi_stats" sources 2019-10-16T09:08:57 f2py options: [] 2019-10-16T09:08:57 f2py:> build/src.linux-armv7l-3.7/amlearn/featurize/src/voronoi_statsmodule.c 2019-10-16T09:08:59 Reading fortran codes... 2019-10-16T09:08:59 Reading file 'amlearn/featurize/src/voronoi_stats.f90' (format:free) 2019-10-16T09:08:59 {'before': '', 'this': 'use', 'after': ':: a_stats, only: all_stats '} 2019-10-16T09:08:59 Line #205 in amlearn/featurize/src/voronoi_stats.f90:" use :: a_stats, only: all_stats " 2019-10-16T09:08:59 analyzeline: Could not crack the use statement. 2019-10-16T09:08:59 {'before': '', 'this': 'use', 'after': ':: a_stats, only: all_stats '} 2019-10-16T09:08:59 Line #230 in amlearn/featurize/src/voronoi_stats.f90:" use :: a_stats, only: all_stats " 2019-10-16T09:08:59 analyzeline: Could not crack the use statement. 2019-10-16T09:08:59 {'before': '', 'this': 'use', 'after': ':: a_stats, only : all_stats '} 2019-10-16T09:08:59 Line #318 in amlearn/featurize/src/voronoi_stats.f90:" use :: a_stats, only : all_stats " 2019-10-16T09:08:59 analyzeline: Could not crack the use statement. 2019-10-16T09:08:59 {'before': '', 'this': 'use', 'after': ':: c_stats, only : customize_stats '} 2019-10-16T09:08:59 Line #320 in amlearn/featurize/src/voronoi_stats.f90:" use :: c_stats, only : customize_stats " 2019-10-16T09:08:59 analyzeline: Could not crack the use statement. 2019-10-16T09:08:59 Reading file 'amlearn/featurize/src/utils.f90' (format:free) 2019-10-16T09:08:59 Post-processing... 2019-10-16T09:08:59 Block: voronoi_stats 2019-10-16T09:08:59 Block: voronoi_index 2019-10-16T09:08:59 Block: i_fold_symmetry 2019-10-16T09:08:59 Block: line_percent 2019-10-16T09:08:59 {} 2019-10-16T09:08:59 In: :voronoi_stats:amlearn/featurize/src/voronoi_stats.f90:character_motif 2019-10-16T09:08:59 vars2fortran: No typespec for argument "n_voro". 2019-10-16T09:08:59 {} 2019-10-16T09:08:59 In: :voronoi_stats:amlearn/featurize/src/voronoi_stats.f90:character_motif 2019-10-16T09:08:59 vars2fortran: No typespec for argument "n_target". 2019-10-16T09:08:59 Block: character_motif 2019-10-16T09:08:59 Block: area_wt_i_fold_symmetry 2019-10-16T09:08:59 Block: vol_wt_i_fold_symmetry 2019-10-16T09:08:59 Block: voronoi_area_stats 2019-10-16T09:08:59 Block: voronoi_area_stats_separate 2019-10-16T09:08:59 Block: voronoi_vol_stats 2019-10-16T09:08:59 Block: voronoi_vol_stats_separate 2019-10-16T09:08:59 Block: voronoi_distance_stats 2019-10-16T09:08:59 Block: determinant_func 2019-10-16T09:08:59 Block: determinant 2019-10-16T09:08:59 Block: distance 2019-10-16T09:08:59 Block: distance_info 2019-10-16T09:08:59 Block: quicksort 2019-10-16T09:08:59 Block: quick_sort 2019-10-16T09:08:59 Block: cg_function 2019-10-16T09:08:59 Block: calculate_cg 2019-10-16T09:08:59 Block: angle 2019-10-16T09:08:59 Block: angle_info 2019-10-16T09:08:59 Block: c_stats 2019-10-16T09:08:59 Block: customize_stats 2019-10-16T09:08:59 Block: a_stats 2019-10-16T09:08:59 Block: all_stats 2019-10-16T09:08:59 Post-processing (stage 2)... 2019-10-16T09:08:59 Block: voronoi_stats 2019-10-16T09:08:59 Block: unknown_interface 2019-10-16T09:08:59 Block: voronoi_index 2019-10-16T09:08:59 Block: i_fold_symmetry 2019-10-16T09:08:59 Block: line_percent 2019-10-16T09:08:59 Block: character_motif 2019-10-16T09:08:59 Block: area_wt_i_fold_symmetry 2019-10-16T09:08:59 Block: vol_wt_i_fold_symmetry 2019-10-16T09:08:59 Block: voronoi_area_stats 2019-10-16T09:08:59 Block: voronoi_area_stats_separate 2019-10-16T09:08:59 Block: voronoi_vol_stats 2019-10-16T09:08:59 Block: voronoi_vol_stats_separate 2019-10-16T09:08:59 Block: voronoi_distance_stats 2019-10-16T09:08:59 Block: determinant_func 2019-10-16T09:08:59 Block: determinant 2019-10-16T09:08:59 Block: distance 2019-10-16T09:08:59 Block: distance_info 2019-10-16T09:08:59 Block: quicksort 2019-10-16T09:08:59 Block: quick_sort 2019-10-16T09:08:59 Block: cg_function 2019-10-16T09:08:59 Block: calculate_cg 2019-10-16T09:08:59 Block: angle 2019-10-16T09:08:59 Block: angle_info 2019-10-16T09:08:59 Block: c_stats 2019-10-16T09:08:59 Block: customize_stats 2019-10-16T09:08:59 Block: a_stats 2019-10-16T09:08:59 Block: all_stats 2019-10-16T09:08:59 Building modules... 2019-10-16T09:08:59 Building module "voronoi_stats"... 2019-10-16T09:08:59 Constructing wrapper function "voronoi_index"... 2019-10-16T09:08:59 voronoi_index_list = voronoi_index(voronoi_index_list,n_neighbor_list,neighbor_edge_lists,edge_min,edge_max,include_beyond_edge_max,[n_atoms,neighbor_num_limit]) 2019-10-16T09:08:59 Constructing wrapper function "i_fold_symmetry"... 2019-10-16T09:08:59 i_symm_list = i_fold_symmetry(i_symm_list,n_neighbor_list,neighbor_edge_lists,edge_min,edge_max,include_beyond_edge_max,[n_atoms,neighbor_num_limit]) 2019-10-16T09:08:59 Constructing wrapper function "line_percent"... 2019-10-16T09:08:59 percent_list = line_percent(percent_list,value_list,[n_atoms,n_values]) 2019-10-16T09:08:59 Constructing wrapper function "character_motif"... 2019-10-16T09:08:59 motif_one_hot = character_motif(motif_one_hot,voronoi_index_list,edge_min,target_voro_idx,frank_kasper,[n_atoms,n_voro,n_target]) 2019-10-16T09:08:59 Constructing wrapper function "area_wt_i_fold_symmetry"... 2019-10-16T09:08:59 area_wt_i_symm_list = area_wt_i_fold_symmetry(area_wt_i_symm_list,n_neighbor_list,neighbor_edge_lists,neighbor_area_lists,edge_min,edge_max,include_beyond_edge_max,[n_atoms,neighbor_num_limit]) 2019-10-16T09:08:59 Constructing wrapper function "vol_wt_i_fold_symmetry"... 2019-10-16T09:08:59 vol_wt_i_symm_list = vol_wt_i_fold_symmetry(vol_wt_i_symm_list,n_neighbor_list,neighbor_edge_lists,neighbor_vol_lists,edge_min,edge_max,include_beyond_edge_max,[n_atoms,neighbor_num_limit]) 2019-10-16T09:08:59 Constructing wrapper function "voronoi_area_stats"... 2019-10-16T09:08:59 area_stats = voronoi_area_stats(area_stats,n_neighbor_list,neighbor_area_lists,[n_atoms,neighbor_num_limit]) 2019-10-16T09:08:59 Constructing wrapper function "voronoi_area_stats_separate"... 2019-10-16T09:08:59 area_stats_separate = voronoi_area_stats_separate(area_stats_separate,n_neighbor_list,neighbor_edge_lists,neighbor_area_lists,edge_min,edge_max,include_beyond_edge_max,[n_atoms,neighbor_num_limit]) 2019-10-16T09:08:59 Constructing wrapper function "voronoi_vol_stats"... 2019-10-16T09:08:59 vol_stats = voronoi_vol_stats(vol_stats,n_neighbor_list,neighbor_vol_lists,[n_atoms,neighbor_num_limit]) 2019-10-16T09:08:59 Constructing wrapper function "voronoi_vol_stats_separate"... 2019-10-16T09:08:59 vol_stats_separate = voronoi_vol_stats_separate(vol_stats_separate,n_neighbor_list,neighbor_edge_lists,neighbor_vol_lists,edge_min,edge_max,include_beyond_edge_max,[n_atoms,neighbor_num_limit]) 2019-10-16T09:08:59 Constructing wrapper function "voronoi_distance_stats"... 2019-10-16T09:08:59 distance_stats = voronoi_distance_stats(distance_stats,n_neighbor_list,neighbor_distance_lists,[n_atoms,neighbor_num_limit]) 2019-10-16T09:08:59 Constructing F90 module support for "determinant_func"... 2019-10-16T09:08:59 Constructing wrapper function "determinant_func.determinant"... 2019-10-16T09:08:59 deter_value = determinant(matrix) 2019-10-16T09:08:59 Constructing F90 module support for "distance"... 2019-10-16T09:08:59 Constructing wrapper function "distance.distance_info"... 2019-10-16T09:08:59 r,d = distance_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:08:59 Constructing F90 module support for "quicksort"... 2019-10-16T09:08:59 Creating wrapper for Fortran subroutine "quick_sort"("quick_sort")... 2019-10-16T09:08:59 Constructing wrapper function "quicksort.quick_sort"... 2019-10-16T09:08:59 quick_sort(array,sort_col,sort_index_min,sort_index_max) 2019-10-16T09:08:59 Constructing F90 module support for "cg_function"... 2019-10-16T09:08:59 Creating wrapper for Fortran function "calculate_cg"("calculate_cg")... 2019-10-16T09:08:59 Constructing wrapper function "cg_function.calculate_cg"... 2019-10-16T09:08:59 cg = calculate_cg(half_l_min,half_l_max) 2019-10-16T09:08:59 Constructing F90 module support for "angle"... 2019-10-16T09:08:59 Constructing wrapper function "angle.angle_info"... 2019-10-16T09:08:59 ksai,theta = angle_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:08:59 Constructing F90 module support for "c_stats"... 2019-10-16T09:08:59 Creating wrapper for Fortran function "customize_stats"("customize_stats")... 2019-10-16T09:08:59 Constructing wrapper function "c_stats.customize_stats"... 2019-10-16T09:08:59 stats = customize_stats(list,stats_types,stats_types_sum,self_prop) 2019-10-16T09:08:59 Constructing F90 module support for "a_stats"... 2019-10-16T09:08:59 Creating wrapper for Fortran function "all_stats"("all_stats")... 2019-10-16T09:08:59 Constructing wrapper function "a_stats.all_stats"... 2019-10-16T09:08:59 stats = all_stats(list,[len_bn]) 2019-10-16T09:08:59 Wrote C/API module "voronoi_stats" to file "build/src.linux-armv7l-3.7/amlearn/featurize/src/voronoi_statsmodule.c" 2019-10-16T09:08:59 Fortran 90 wrappers are saved to "build/src.linux-armv7l-3.7/amlearn/featurize/src/voronoi_stats-f2pywrappers2.f90" 2019-10-16T09:08:59 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:08:59 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:08:59 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/voronoi_stats-f2pywrappers2.f90' to sources. 2019-10-16T09:08:59 building extension "amlearn.featurize.src.boop" sources 2019-10-16T09:08:59 f2py options: [] 2019-10-16T09:08:59 f2py:> build/src.linux-armv7l-3.7/amlearn/featurize/src/boopmodule.c 2019-10-16T09:09:00 Reading fortran codes... 2019-10-16T09:09:00 Reading file 'amlearn/featurize/src/boop.f90' (format:free) 2019-10-16T09:09:00 {'before': '', 'this': 'use', 'after': ':: angle '} 2019-10-16T09:09:00 Line #9 in amlearn/featurize/src/boop.f90:" use :: angle " 2019-10-16T09:09:00 analyzeline: Could not crack the use statement. 2019-10-16T09:09:00 Reading file 'amlearn/featurize/src/utils.f90' (format:free) 2019-10-16T09:09:00 Post-processing... 2019-10-16T09:09:00 Block: boop 2019-10-16T09:09:00 Block: calculate_boop 2019-10-16T09:09:00 Block: determinant_func 2019-10-16T09:09:00 Block: determinant 2019-10-16T09:09:00 Block: distance 2019-10-16T09:09:00 Block: distance_info 2019-10-16T09:09:00 Block: quicksort 2019-10-16T09:09:00 Block: quick_sort 2019-10-16T09:09:00 Block: cg_function 2019-10-16T09:09:00 Block: calculate_cg 2019-10-16T09:09:00 Block: angle 2019-10-16T09:09:00 Block: angle_info 2019-10-16T09:09:00 Block: c_stats 2019-10-16T09:09:00 Block: customize_stats 2019-10-16T09:09:00 Block: a_stats 2019-10-16T09:09:00 Block: all_stats 2019-10-16T09:09:00 Post-processing (stage 2)... 2019-10-16T09:09:00 Block: boop 2019-10-16T09:09:00 Block: unknown_interface 2019-10-16T09:09:00 Block: calculate_boop 2019-10-16T09:09:00 Block: determinant_func 2019-10-16T09:09:00 Block: determinant 2019-10-16T09:09:00 Block: distance 2019-10-16T09:09:00 Block: distance_info 2019-10-16T09:09:00 Block: quicksort 2019-10-16T09:09:00 Block: quick_sort 2019-10-16T09:09:00 Block: cg_function 2019-10-16T09:09:00 Block: calculate_cg 2019-10-16T09:09:00 Block: angle 2019-10-16T09:09:00 Block: angle_info 2019-10-16T09:09:00 Block: c_stats 2019-10-16T09:09:00 Block: customize_stats 2019-10-16T09:09:00 Block: a_stats 2019-10-16T09:09:00 Block: all_stats 2019-10-16T09:09:00 Building modules... 2019-10-16T09:09:00 Building module "boop"... 2019-10-16T09:09:00 Constructing wrapper function "calculate_boop"... 2019-10-16T09:09:00 ql,wlbar,coarse_ql,coarse_wlbar = calculate_boop(atom_coords,pbc,bds,n_neighbor_list,neighbor_lists,low_order,higher_order,coarse_lower_order,coarse_higher_order,ql,wlbar,coarse_ql,coarse_wlbar,[n_atoms,n_neighbor_limit]) 2019-10-16T09:09:00 Constructing F90 module support for "determinant_func"... 2019-10-16T09:09:00 Constructing wrapper function "determinant_func.determinant"... 2019-10-16T09:09:00 deter_value = determinant(matrix) 2019-10-16T09:09:00 Constructing F90 module support for "distance"... 2019-10-16T09:09:00 Constructing wrapper function "distance.distance_info"... 2019-10-16T09:09:00 r,d = distance_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:09:00 Constructing F90 module support for "quicksort"... 2019-10-16T09:09:00 Creating wrapper for Fortran subroutine "quick_sort"("quick_sort")... 2019-10-16T09:09:00 Constructing wrapper function "quicksort.quick_sort"... 2019-10-16T09:09:00 quick_sort(array,sort_col,sort_index_min,sort_index_max) 2019-10-16T09:09:00 Constructing F90 module support for "cg_function"... 2019-10-16T09:09:00 Creating wrapper for Fortran function "calculate_cg"("calculate_cg")... 2019-10-16T09:09:00 Constructing wrapper function "cg_function.calculate_cg"... 2019-10-16T09:09:00 cg = calculate_cg(half_l_min,half_l_max) 2019-10-16T09:09:00 Constructing F90 module support for "angle"... 2019-10-16T09:09:00 Constructing wrapper function "angle.angle_info"... 2019-10-16T09:09:00 ksai,theta = angle_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:09:00 Constructing F90 module support for "c_stats"... 2019-10-16T09:09:00 Creating wrapper for Fortran function "customize_stats"("customize_stats")... 2019-10-16T09:09:00 Constructing wrapper function "c_stats.customize_stats"... 2019-10-16T09:09:00 stats = customize_stats(list,stats_types,stats_types_sum,self_prop) 2019-10-16T09:09:00 Constructing F90 module support for "a_stats"... 2019-10-16T09:09:00 Creating wrapper for Fortran function "all_stats"("all_stats")... 2019-10-16T09:09:00 Constructing wrapper function "a_stats.all_stats"... 2019-10-16T09:09:00 stats = all_stats(list,[len_bn]) 2019-10-16T09:09:00 Wrote C/API module "boop" to file "build/src.linux-armv7l-3.7/amlearn/featurize/src/boopmodule.c" 2019-10-16T09:09:00 Fortran 90 wrappers are saved to "build/src.linux-armv7l-3.7/amlearn/featurize/src/boop-f2pywrappers2.f90" 2019-10-16T09:09:00 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:00 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:00 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/boop-f2pywrappers2.f90' to sources. 2019-10-16T09:09:00 building extension "amlearn.featurize.src.mro_stats" sources 2019-10-16T09:09:00 f2py options: [] 2019-10-16T09:09:00 f2py:> build/src.linux-armv7l-3.7/amlearn/featurize/src/mro_statsmodule.c 2019-10-16T09:09:01 Reading fortran codes... 2019-10-16T09:09:01 Reading file 'amlearn/featurize/src/mro_stats.f90' (format:free) 2019-10-16T09:09:01 {'before': '', 'this': 'use', 'after': ':: c_stats '} 2019-10-16T09:09:01 Line #5 in amlearn/featurize/src/mro_stats.f90:" use :: c_stats " 2019-10-16T09:09:01 analyzeline: Could not crack the use statement. 2019-10-16T09:09:01 Reading file 'amlearn/featurize/src/utils.f90' (format:free) 2019-10-16T09:09:01 Post-processing... 2019-10-16T09:09:01 Block: mro_stats 2019-10-16T09:09:01 {'attrspec': ['intent(in)']} 2019-10-16T09:09:01 In: :mro_stats:amlearn/featurize/src/mro_stats.f90:sro_to_mro 2019-10-16T09:09:01 vars2fortran: No typespec for argument "n_neighbor_limit". 2019-10-16T09:09:01 Block: sro_to_mro 2019-10-16T09:09:01 Block: determinant_func 2019-10-16T09:09:01 Block: determinant 2019-10-16T09:09:01 Block: distance 2019-10-16T09:09:01 Block: distance_info 2019-10-16T09:09:01 Block: quicksort 2019-10-16T09:09:01 Block: quick_sort 2019-10-16T09:09:01 Block: cg_function 2019-10-16T09:09:01 Block: calculate_cg 2019-10-16T09:09:01 Block: angle 2019-10-16T09:09:01 Block: angle_info 2019-10-16T09:09:01 Block: c_stats 2019-10-16T09:09:01 Block: customize_stats 2019-10-16T09:09:01 Block: a_stats 2019-10-16T09:09:01 Block: all_stats 2019-10-16T09:09:01 Post-processing (stage 2)... 2019-10-16T09:09:01 Block: mro_stats 2019-10-16T09:09:01 Block: unknown_interface 2019-10-16T09:09:01 Block: sro_to_mro 2019-10-16T09:09:01 Block: determinant_func 2019-10-16T09:09:01 Block: determinant 2019-10-16T09:09:01 Block: distance 2019-10-16T09:09:01 Block: distance_info 2019-10-16T09:09:01 Block: quicksort 2019-10-16T09:09:01 Block: quick_sort 2019-10-16T09:09:01 Block: cg_function 2019-10-16T09:09:01 Block: calculate_cg 2019-10-16T09:09:01 Block: angle 2019-10-16T09:09:01 Block: angle_info 2019-10-16T09:09:01 Block: c_stats 2019-10-16T09:09:01 Block: customize_stats 2019-10-16T09:09:01 Block: a_stats 2019-10-16T09:09:01 Block: all_stats 2019-10-16T09:09:01 Building modules... 2019-10-16T09:09:01 Building module "mro_stats"... 2019-10-16T09:09:01 Constructing wrapper function "sro_to_mro"... 2019-10-16T09:09:01 mro_feature = sro_to_mro(sro_feature,n_neighbor_list,neighbor_lists,stats_types,mro_feature,[n_atoms,n_neighbor_limit,sum_stats_types]) 2019-10-16T09:09:01 Constructing F90 module support for "determinant_func"... 2019-10-16T09:09:01 Constructing wrapper function "determinant_func.determinant"... 2019-10-16T09:09:01 deter_value = determinant(matrix) 2019-10-16T09:09:01 Constructing F90 module support for "distance"... 2019-10-16T09:09:01 Constructing wrapper function "distance.distance_info"... 2019-10-16T09:09:01 r,d = distance_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:09:01 Constructing F90 module support for "quicksort"... 2019-10-16T09:09:01 Creating wrapper for Fortran subroutine "quick_sort"("quick_sort")... 2019-10-16T09:09:01 Constructing wrapper function "quicksort.quick_sort"... 2019-10-16T09:09:01 quick_sort(array,sort_col,sort_index_min,sort_index_max) 2019-10-16T09:09:01 Constructing F90 module support for "cg_function"... 2019-10-16T09:09:01 Creating wrapper for Fortran function "calculate_cg"("calculate_cg")... 2019-10-16T09:09:01 Constructing wrapper function "cg_function.calculate_cg"... 2019-10-16T09:09:01 cg = calculate_cg(half_l_min,half_l_max) 2019-10-16T09:09:01 Constructing F90 module support for "angle"... 2019-10-16T09:09:01 Constructing wrapper function "angle.angle_info"... 2019-10-16T09:09:01 ksai,theta = angle_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:09:01 Constructing F90 module support for "c_stats"... 2019-10-16T09:09:01 Creating wrapper for Fortran function "customize_stats"("customize_stats")... 2019-10-16T09:09:01 Constructing wrapper function "c_stats.customize_stats"... 2019-10-16T09:09:01 stats = customize_stats(list,stats_types,stats_types_sum,self_prop) 2019-10-16T09:09:01 Constructing F90 module support for "a_stats"... 2019-10-16T09:09:01 Creating wrapper for Fortran function "all_stats"("all_stats")... 2019-10-16T09:09:01 Constructing wrapper function "a_stats.all_stats"... 2019-10-16T09:09:01 stats = all_stats(list,[len_bn]) 2019-10-16T09:09:01 Wrote C/API module "mro_stats" to file "build/src.linux-armv7l-3.7/amlearn/featurize/src/mro_statsmodule.c" 2019-10-16T09:09:01 Fortran 90 wrappers are saved to "build/src.linux-armv7l-3.7/amlearn/featurize/src/mro_stats-f2pywrappers2.f90" 2019-10-16T09:09:01 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:01 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:01 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/mro_stats-f2pywrappers2.f90' to sources. 2019-10-16T09:09:01 building extension "amlearn.featurize.src.neighbor_data" sources 2019-10-16T09:09:01 f2py options: [] 2019-10-16T09:09:01 f2py:> build/src.linux-armv7l-3.7/amlearn/featurize/src/neighbor_datamodule.c 2019-10-16T09:09:02 Reading fortran codes... 2019-10-16T09:09:02 Reading file 'amlearn/featurize/src/neighbor_data.f90' (format:free) 2019-10-16T09:09:02 Reading file 'amlearn/featurize/src/utils.f90' (format:free) 2019-10-16T09:09:02 Post-processing... 2019-10-16T09:09:02 Block: neighbor_data 2019-10-16T09:09:02 Block: add_neighbor_features 2019-10-16T09:09:02 Block: determinant_func 2019-10-16T09:09:02 Block: determinant 2019-10-16T09:09:02 Block: distance 2019-10-16T09:09:02 Block: distance_info 2019-10-16T09:09:02 Block: quicksort 2019-10-16T09:09:02 Block: quick_sort 2019-10-16T09:09:02 Block: cg_function 2019-10-16T09:09:02 Block: calculate_cg 2019-10-16T09:09:02 Block: angle 2019-10-16T09:09:02 Block: angle_info 2019-10-16T09:09:02 Block: c_stats 2019-10-16T09:09:02 Block: customize_stats 2019-10-16T09:09:02 Block: a_stats 2019-10-16T09:09:02 Block: all_stats 2019-10-16T09:09:02 Post-processing (stage 2)... 2019-10-16T09:09:02 Block: neighbor_data 2019-10-16T09:09:02 Block: unknown_interface 2019-10-16T09:09:02 Block: add_neighbor_features 2019-10-16T09:09:02 Block: determinant_func 2019-10-16T09:09:02 Block: determinant 2019-10-16T09:09:02 Block: distance 2019-10-16T09:09:02 Block: distance_info 2019-10-16T09:09:02 Block: quicksort 2019-10-16T09:09:02 Block: quick_sort 2019-10-16T09:09:02 Block: cg_function 2019-10-16T09:09:02 Block: calculate_cg 2019-10-16T09:09:02 Block: angle 2019-10-16T09:09:02 Block: angle_info 2019-10-16T09:09:02 Block: c_stats 2019-10-16T09:09:02 Block: customize_stats 2019-10-16T09:09:02 Block: a_stats 2019-10-16T09:09:02 Block: all_stats 2019-10-16T09:09:02 Building modules... 2019-10-16T09:09:02 Building module "neighbor_data"... 2019-10-16T09:09:02 Constructing wrapper function "add_neighbor_features"... 2019-10-16T09:09:02 features_new = add_neighbor_features(pred_last,neigh_voro,probs,features_new,[n_atoms,n_neighs,n_probs,n_features]) 2019-10-16T09:09:02 Constructing F90 module support for "determinant_func"... 2019-10-16T09:09:02 Constructing wrapper function "determinant_func.determinant"... 2019-10-16T09:09:02 deter_value = determinant(matrix) 2019-10-16T09:09:02 Constructing F90 module support for "distance"... 2019-10-16T09:09:02 Constructing wrapper function "distance.distance_info"... 2019-10-16T09:09:02 r,d = distance_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:09:02 Constructing F90 module support for "quicksort"... 2019-10-16T09:09:02 Creating wrapper for Fortran subroutine "quick_sort"("quick_sort")... 2019-10-16T09:09:02 Constructing wrapper function "quicksort.quick_sort"... 2019-10-16T09:09:02 quick_sort(array,sort_col,sort_index_min,sort_index_max) 2019-10-16T09:09:02 Constructing F90 module support for "cg_function"... 2019-10-16T09:09:02 Creating wrapper for Fortran function "calculate_cg"("calculate_cg")... 2019-10-16T09:09:02 Constructing wrapper function "cg_function.calculate_cg"... 2019-10-16T09:09:02 cg = calculate_cg(half_l_min,half_l_max) 2019-10-16T09:09:02 Constructing F90 module support for "angle"... 2019-10-16T09:09:02 Constructing wrapper function "angle.angle_info"... 2019-10-16T09:09:02 ksai,theta = angle_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:09:02 Constructing F90 module support for "c_stats"... 2019-10-16T09:09:02 Creating wrapper for Fortran function "customize_stats"("customize_stats")... 2019-10-16T09:09:02 Constructing wrapper function "c_stats.customize_stats"... 2019-10-16T09:09:02 stats = customize_stats(list,stats_types,stats_types_sum,self_prop) 2019-10-16T09:09:02 Constructing F90 module support for "a_stats"... 2019-10-16T09:09:02 Creating wrapper for Fortran function "all_stats"("all_stats")... 2019-10-16T09:09:02 Constructing wrapper function "a_stats.all_stats"... 2019-10-16T09:09:02 stats = all_stats(list,[len_bn]) 2019-10-16T09:09:02 Wrote C/API module "neighbor_data" to file "build/src.linux-armv7l-3.7/amlearn/featurize/src/neighbor_datamodule.c" 2019-10-16T09:09:02 Fortran 90 wrappers are saved to "build/src.linux-armv7l-3.7/amlearn/featurize/src/neighbor_data-f2pywrappers2.f90" 2019-10-16T09:09:02 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:02 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:02 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/neighbor_data-f2pywrappers2.f90' to sources. 2019-10-16T09:09:02 building extension "amlearn.featurize.src.distance_stats" sources 2019-10-16T09:09:02 f2py options: [] 2019-10-16T09:09:02 f2py:> build/src.linux-armv7l-3.7/amlearn/featurize/src/distance_statsmodule.c 2019-10-16T09:09:03 Reading fortran codes... 2019-10-16T09:09:03 Reading file 'amlearn/featurize/src/distance_stats.f90' (format:free) 2019-10-16T09:09:03 {'before': '', 'this': 'use', 'after': ':: a_stats '} 2019-10-16T09:09:03 Line #17 in amlearn/featurize/src/distance_stats.f90:" use :: a_stats " 2019-10-16T09:09:03 analyzeline: Could not crack the use statement. 2019-10-16T09:09:03 Reading file 'amlearn/featurize/src/utils.f90' (format:free) 2019-10-16T09:09:03 Post-processing... 2019-10-16T09:09:03 Block: distance_stats 2019-10-16T09:09:03 Block: cn_dist 2019-10-16T09:09:03 Block: cutoff_distance_stats 2019-10-16T09:09:03 Block: determinant_func 2019-10-16T09:09:03 Block: determinant 2019-10-16T09:09:03 Block: distance 2019-10-16T09:09:03 Block: distance_info 2019-10-16T09:09:03 Block: quicksort 2019-10-16T09:09:03 Block: quick_sort 2019-10-16T09:09:03 Block: cg_function 2019-10-16T09:09:03 Block: calculate_cg 2019-10-16T09:09:03 Block: angle 2019-10-16T09:09:03 Block: angle_info 2019-10-16T09:09:03 Block: c_stats 2019-10-16T09:09:03 Block: customize_stats 2019-10-16T09:09:03 Block: a_stats 2019-10-16T09:09:03 Block: all_stats 2019-10-16T09:09:03 Post-processing (stage 2)... 2019-10-16T09:09:03 Block: distance_stats 2019-10-16T09:09:03 Block: unknown_interface 2019-10-16T09:09:03 Block: cn_dist 2019-10-16T09:09:03 Block: cutoff_distance_stats 2019-10-16T09:09:03 Block: determinant_func 2019-10-16T09:09:03 Block: determinant 2019-10-16T09:09:03 Block: distance 2019-10-16T09:09:03 Block: distance_info 2019-10-16T09:09:03 Block: quicksort 2019-10-16T09:09:03 Block: quick_sort 2019-10-16T09:09:03 Block: cg_function 2019-10-16T09:09:03 Block: calculate_cg 2019-10-16T09:09:03 Block: angle 2019-10-16T09:09:03 Block: angle_info 2019-10-16T09:09:03 Block: c_stats 2019-10-16T09:09:03 Block: customize_stats 2019-10-16T09:09:03 Block: a_stats 2019-10-16T09:09:03 Block: all_stats 2019-10-16T09:09:03 Building modules... 2019-10-16T09:09:03 Building module "distance_stats"... 2019-10-16T09:09:03 Constructing wrapper function "cn_dist"... 2019-10-16T09:09:03 cn = cn_dist(n_neighbor_list) 2019-10-16T09:09:03 Constructing wrapper function "cutoff_distance_stats"... 2019-10-16T09:09:03 cutoff_distance_stats(distance_stats,n_neighbor_list,neighbor_distance_lists,[n_atoms,n_neighbor_limit]) 2019-10-16T09:09:03 Constructing F90 module support for "determinant_func"... 2019-10-16T09:09:03 Constructing wrapper function "determinant_func.determinant"... 2019-10-16T09:09:03 deter_value = determinant(matrix) 2019-10-16T09:09:03 Constructing F90 module support for "distance"... 2019-10-16T09:09:03 Constructing wrapper function "distance.distance_info"... 2019-10-16T09:09:03 r,d = distance_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:09:03 Constructing F90 module support for "quicksort"... 2019-10-16T09:09:03 Creating wrapper for Fortran subroutine "quick_sort"("quick_sort")... 2019-10-16T09:09:03 Constructing wrapper function "quicksort.quick_sort"... 2019-10-16T09:09:03 quick_sort(array,sort_col,sort_index_min,sort_index_max) 2019-10-16T09:09:03 Constructing F90 module support for "cg_function"... 2019-10-16T09:09:03 Creating wrapper for Fortran function "calculate_cg"("calculate_cg")... 2019-10-16T09:09:03 Constructing wrapper function "cg_function.calculate_cg"... 2019-10-16T09:09:03 cg = calculate_cg(half_l_min,half_l_max) 2019-10-16T09:09:03 Constructing F90 module support for "angle"... 2019-10-16T09:09:03 Constructing wrapper function "angle.angle_info"... 2019-10-16T09:09:03 ksai,theta = angle_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:09:03 Constructing F90 module support for "c_stats"... 2019-10-16T09:09:03 Creating wrapper for Fortran function "customize_stats"("customize_stats")... 2019-10-16T09:09:03 Constructing wrapper function "c_stats.customize_stats"... 2019-10-16T09:09:03 stats = customize_stats(list,stats_types,stats_types_sum,self_prop) 2019-10-16T09:09:03 Constructing F90 module support for "a_stats"... 2019-10-16T09:09:03 Creating wrapper for Fortran function "all_stats"("all_stats")... 2019-10-16T09:09:03 Constructing wrapper function "a_stats.all_stats"... 2019-10-16T09:09:03 stats = all_stats(list,[len_bn]) 2019-10-16T09:09:03 Wrote C/API module "distance_stats" to file "build/src.linux-armv7l-3.7/amlearn/featurize/src/distance_statsmodule.c" 2019-10-16T09:09:03 Fortran 90 wrappers are saved to "build/src.linux-armv7l-3.7/amlearn/featurize/src/distance_stats-f2pywrappers2.f90" 2019-10-16T09:09:03 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:03 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:03 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/distance_stats-f2pywrappers2.f90' to sources. 2019-10-16T09:09:03 building extension "amlearn.featurize.src.distance_nn" sources 2019-10-16T09:09:03 f2py options: [] 2019-10-16T09:09:03 f2py:> build/src.linux-armv7l-3.7/amlearn/featurize/src/distance_nnmodule.c 2019-10-16T09:09:04 Reading fortran codes... 2019-10-16T09:09:04 Reading file 'amlearn/featurize/src/distance_nn.f90' (format:free) 2019-10-16T09:09:04 {'before': '', 'this': 'use', 'after': ':: distance '} 2019-10-16T09:09:04 Line #29 in amlearn/featurize/src/distance_nn.f90:" use :: distance " 2019-10-16T09:09:04 analyzeline: Could not crack the use statement. 2019-10-16T09:09:04 {'before': '', 'this': 'use', 'after': ':: quicksort '} 2019-10-16T09:09:04 Line #31 in amlearn/featurize/src/distance_nn.f90:" use :: quicksort " 2019-10-16T09:09:04 analyzeline: Could not crack the use statement. 2019-10-16T09:09:04 Reading file 'amlearn/featurize/src/utils.f90' (format:free) 2019-10-16T09:09:04 Post-processing... 2019-10-16T09:09:04 Block: distance_nn 2019-10-16T09:09:04 Block: distance_neighbor 2019-10-16T09:09:04 Block: determinant_func 2019-10-16T09:09:04 Block: determinant 2019-10-16T09:09:04 Block: distance 2019-10-16T09:09:04 Block: distance_info 2019-10-16T09:09:04 Block: quicksort 2019-10-16T09:09:04 Block: quick_sort 2019-10-16T09:09:04 Block: cg_function 2019-10-16T09:09:04 Block: calculate_cg 2019-10-16T09:09:04 Block: angle 2019-10-16T09:09:04 Block: angle_info 2019-10-16T09:09:04 Block: c_stats 2019-10-16T09:09:04 Block: customize_stats 2019-10-16T09:09:04 Block: a_stats 2019-10-16T09:09:04 Block: all_stats 2019-10-16T09:09:04 Post-processing (stage 2)... 2019-10-16T09:09:04 Block: distance_nn 2019-10-16T09:09:04 Block: unknown_interface 2019-10-16T09:09:04 Block: distance_neighbor 2019-10-16T09:09:04 Block: determinant_func 2019-10-16T09:09:04 Block: determinant 2019-10-16T09:09:04 Block: distance 2019-10-16T09:09:04 Block: distance_info 2019-10-16T09:09:04 Block: quicksort 2019-10-16T09:09:04 Block: quick_sort 2019-10-16T09:09:04 Block: cg_function 2019-10-16T09:09:04 Block: calculate_cg 2019-10-16T09:09:04 Block: angle 2019-10-16T09:09:04 Block: angle_info 2019-10-16T09:09:04 Block: c_stats 2019-10-16T09:09:04 Block: customize_stats 2019-10-16T09:09:04 Block: a_stats 2019-10-16T09:09:04 Block: all_stats 2019-10-16T09:09:04 Building modules... 2019-10-16T09:09:04 Building module "distance_nn"... 2019-10-16T09:09:04 Constructing wrapper function "distance_neighbor"... 2019-10-16T09:09:04 n_neighbor_max,n_neighbor_list,neighbor_lists,neighbor_distance_lists = distance_neighbor(atom_type,atom_coords,distance_cutoff,allow_neighbor_limit,pbc,bds,n_neighbor_max,n_neighbor_list,neighbor_lists,neighbor_distance_lists,[n_atoms,n_neighbor_limit]) 2019-10-16T09:09:04 Constructing F90 module support for "determinant_func"... 2019-10-16T09:09:04 Constructing wrapper function "determinant_func.determinant"... 2019-10-16T09:09:04 deter_value = determinant(matrix) 2019-10-16T09:09:04 Constructing F90 module support for "distance"... 2019-10-16T09:09:04 Constructing wrapper function "distance.distance_info"... 2019-10-16T09:09:04 r,d = distance_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:09:04 Constructing F90 module support for "quicksort"... 2019-10-16T09:09:04 Creating wrapper for Fortran subroutine "quick_sort"("quick_sort")... 2019-10-16T09:09:04 Constructing wrapper function "quicksort.quick_sort"... 2019-10-16T09:09:04 quick_sort(array,sort_col,sort_index_min,sort_index_max) 2019-10-16T09:09:04 Constructing F90 module support for "cg_function"... 2019-10-16T09:09:04 Creating wrapper for Fortran function "calculate_cg"("calculate_cg")... 2019-10-16T09:09:04 Constructing wrapper function "cg_function.calculate_cg"... 2019-10-16T09:09:04 cg = calculate_cg(half_l_min,half_l_max) 2019-10-16T09:09:04 Constructing F90 module support for "angle"... 2019-10-16T09:09:04 Constructing wrapper function "angle.angle_info"... 2019-10-16T09:09:04 ksai,theta = angle_info(atom_coords_i,atom_coords_j,bds,pbc) 2019-10-16T09:09:04 Constructing F90 module support for "c_stats"... 2019-10-16T09:09:04 Creating wrapper for Fortran function "customize_stats"("customize_stats")... 2019-10-16T09:09:04 Constructing wrapper function "c_stats.customize_stats"... 2019-10-16T09:09:04 stats = customize_stats(list,stats_types,stats_types_sum,self_prop) 2019-10-16T09:09:04 Constructing F90 module support for "a_stats"... 2019-10-16T09:09:04 Creating wrapper for Fortran function "all_stats"("all_stats")... 2019-10-16T09:09:04 Constructing wrapper function "a_stats.all_stats"... 2019-10-16T09:09:04 stats = all_stats(list,[len_bn]) 2019-10-16T09:09:04 Wrote C/API module "distance_nn" to file "build/src.linux-armv7l-3.7/amlearn/featurize/src/distance_nnmodule.c" 2019-10-16T09:09:04 Fortran 90 wrappers are saved to "build/src.linux-armv7l-3.7/amlearn/featurize/src/distance_nn-f2pywrappers2.f90" 2019-10-16T09:09:04 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:04 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:04 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/distance_nn-f2pywrappers2.f90' to sources. 2019-10-16T09:09:04 build_src: building npy-pkg config files 2019-10-16T09:09:04 creating pip-egg-info/amlearn.egg-info 2019-10-16T09:09:04 writing pip-egg-info/amlearn.egg-info/PKG-INFO 2019-10-16T09:09:04 writing dependency_links to pip-egg-info/amlearn.egg-info/dependency_links.txt 2019-10-16T09:09:04 writing requirements to pip-egg-info/amlearn.egg-info/requires.txt 2019-10-16T09:09:04 writing top-level names to pip-egg-info/amlearn.egg-info/top_level.txt 2019-10-16T09:09:04 writing manifest file 'pip-egg-info/amlearn.egg-info/SOURCES.txt' 2019-10-16T09:09:04 reading manifest file 'pip-egg-info/amlearn.egg-info/SOURCES.txt' 2019-10-16T09:09:04 writing manifest file 'pip-egg-info/amlearn.egg-info/SOURCES.txt' 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "min" with "min_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "max" with "max_bn". 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 "object of type 'type' has no len()" in evaluating 'len(list)' (available names: []) 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "min" with "min_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "max" with "max_bn". 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 "object of type 'type' has no len()" in evaluating 'len(list)' (available names: []) 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "min" with "min_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "max" with "max_bn". 2019-10-16T09:09:04 sortvarnames: failed to compute dependencies because of cyclic dependencies between target_voro_idx, voronoi_index_list, motif_one_hot, n_voro, n_target, n_atoms 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 "object of type 'type' has no len()" in evaluating 'len(list)' (available names: []) 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "min" with "min_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "max" with "max_bn". 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 "object of type 'type' has no len()" in evaluating 'len(list)' (available names: []) 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "min" with "min_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "max" with "max_bn". 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 "object of type 'type' has no len()" in evaluating 'len(list)' (available names: []) 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "min" with "min_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "max" with "max_bn". 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 "object of type 'type' has no len()" in evaluating 'len(list)' (available names: []) 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "min" with "min_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "max" with "max_bn". 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 "object of type 'type' has no len()" in evaluating 'len(list)' (available names: []) 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "min" with "min_bn". 2019-10-16T09:09:04 rmbadname1: Replacing "max" with "max_bn". 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 rmbadname1: Replacing "len" with "len_bn". 2019-10-16T09:09:04 "object of type 'type' has no len()" in evaluating 'len(list)' (available names: []) 2019-10-16T09:09:04 appenddecl: "dimension" not implemented. 2019-10-16T09:09:04 Source in /tmp/pip-wheel-xlo4j3pp/amlearn has version 0.2.1, which satisfies requirement amlearn==0.2.1 from https://files.pythonhosted.org/packages/bb/91/5d7bc08da68c418d6a61ba40238d065acafeff63ecd5c802d6bff7790aba/amlearn-0.2.1.tar.gz#sha256=036b1f5f9152145124dc681a3345d518f374c1a8785f602addf4bc27494917f3 2019-10-16T09:09:04 Removed amlearn==0.2.1 from https://files.pythonhosted.org/packages/bb/91/5d7bc08da68c418d6a61ba40238d065acafeff63ecd5c802d6bff7790aba/amlearn-0.2.1.tar.gz#sha256=036b1f5f9152145124dc681a3345d518f374c1a8785f602addf4bc27494917f3 from build tracker '/tmp/pip-req-tracker-kn32smos' 2019-10-16T09:09:04 Building wheels for collected packages: amlearn 2019-10-16T09:09:04 Created temporary directory: /tmp/pip-wheel-4s724dzw 2019-10-16T09:09:04 Building wheel for amlearn (setup.py): started 2019-10-16T09:09:04 Destination directory: /tmp/pip-wheel-4s724dzw 2019-10-16T09:09:04 Running command /usr/bin/python3 -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-wheel-xlo4j3pp/amlearn/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-4s724dzw 2019-10-16T09:09:07 running bdist_wheel 2019-10-16T09:09:07 running build 2019-10-16T09:09:07 running config_cc 2019-10-16T09:09:07 unifing config_cc, config, build_clib, build_ext, build commands --compiler options 2019-10-16T09:09:07 running config_fc 2019-10-16T09:09:07 unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options 2019-10-16T09:09:07 running build_src 2019-10-16T09:09:07 build_src 2019-10-16T09:09:07 building extension "amlearn.featurize.src.utils" sources 2019-10-16T09:09:07 f2py options: [] 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/utils-f2pywrappers2.f90' to sources. 2019-10-16T09:09:07 building extension "amlearn.featurize.src.voronoi_nn" sources 2019-10-16T09:09:07 f2py options: [] 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/voronoi_nn-f2pywrappers2.f90' to sources. 2019-10-16T09:09:07 building extension "amlearn.featurize.src.voronoi_stats" sources 2019-10-16T09:09:07 f2py options: [] 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/voronoi_stats-f2pywrappers2.f90' to sources. 2019-10-16T09:09:07 building extension "amlearn.featurize.src.boop" sources 2019-10-16T09:09:07 f2py options: [] 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/boop-f2pywrappers2.f90' to sources. 2019-10-16T09:09:07 building extension "amlearn.featurize.src.mro_stats" sources 2019-10-16T09:09:07 f2py options: [] 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/mro_stats-f2pywrappers2.f90' to sources. 2019-10-16T09:09:07 building extension "amlearn.featurize.src.neighbor_data" sources 2019-10-16T09:09:07 f2py options: [] 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/neighbor_data-f2pywrappers2.f90' to sources. 2019-10-16T09:09:07 building extension "amlearn.featurize.src.distance_stats" sources 2019-10-16T09:09:07 f2py options: [] 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/distance_stats-f2pywrappers2.f90' to sources. 2019-10-16T09:09:07 building extension "amlearn.featurize.src.distance_nn" sources 2019-10-16T09:09:07 f2py options: [] 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c' to sources. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src' to include_dirs. 2019-10-16T09:09:07 adding 'build/src.linux-armv7l-3.7/amlearn/featurize/src/distance_nn-f2pywrappers2.f90' to sources. 2019-10-16T09:09:07 build_src: building npy-pkg config files 2019-10-16T09:09:07 running build_py 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7/amlearn 2019-10-16T09:09:07 copying amlearn/_version.py -> build/lib.linux-armv7l-3.7/amlearn 2019-10-16T09:09:07 copying amlearn/__init__.py -> build/lib.linux-armv7l-3.7/amlearn 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7/scripts 2019-10-16T09:09:07 copying scripts/generalization.py -> build/lib.linux-armv7l-3.7/scripts 2019-10-16T09:09:07 copying scripts/fractal_analysis.py -> build/lib.linux-armv7l-3.7/scripts 2019-10-16T09:09:07 copying scripts/distribution.py -> build/lib.linux-armv7l-3.7/scripts 2019-10-16T09:09:07 copying scripts/feature_violinplot.py -> build/lib.linux-armv7l-3.7/scripts 2019-10-16T09:09:07 copying scripts/__init__.py -> build/lib.linux-armv7l-3.7/scripts 2019-10-16T09:09:07 copying scripts/featurize_interstice.py -> build/lib.linux-armv7l-3.7/scripts 2019-10-16T09:09:07 copying scripts/featurize_bp_symmfunc.py -> build/lib.linux-armv7l-3.7/scripts 2019-10-16T09:09:07 copying scripts/pdp_plot.py -> build/lib.linux-armv7l-3.7/scripts 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:07 copying amlearn/featurize/base.py -> build/lib.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:07 copying amlearn/featurize/short_range_order.py -> build/lib.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:07 copying amlearn/featurize/nearest_neighbor.py -> build/lib.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:07 copying amlearn/featurize/symmetry_function.py -> build/lib.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:07 copying amlearn/featurize/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:07 copying amlearn/featurize/medium_range_order.py -> build/lib.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:07 copying amlearn/featurize/pipeline.py -> build/lib.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/check.py -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/data.py -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/logging.py -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/backend.py -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/directory.py -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/packing.py -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/basetest.py -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/verbose.py -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7/amlearn/learn 2019-10-16T09:09:07 copying amlearn/learn/base.py -> build/lib.linux-armv7l-3.7/amlearn/learn 2019-10-16T09:09:07 copying amlearn/learn/classifier.py -> build/lib.linux-armv7l-3.7/amlearn/learn 2019-10-16T09:09:07 copying amlearn/learn/regressor.py -> build/lib.linux-armv7l-3.7/amlearn/learn 2019-10-16T09:09:07 copying amlearn/learn/preprocessor.py -> build/lib.linux-armv7l-3.7/amlearn/learn 2019-10-16T09:09:07 copying amlearn/learn/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/learn 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7/amlearn/featurize/tests 2019-10-16T09:09:07 copying amlearn/featurize/tests/test_nearest_neighbor.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/tests 2019-10-16T09:09:07 copying amlearn/featurize/tests/test_short_range_order.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/tests 2019-10-16T09:09:07 copying amlearn/featurize/tests/test_featurizer_pipeline.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/tests 2019-10-16T09:09:07 copying amlearn/featurize/tests/test_medium_range_order.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/tests 2019-10-16T09:09:07 copying amlearn/featurize/tests/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/tests 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7/amlearn/featurize/src 2019-10-16T09:09:07 copying amlearn/featurize/src/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/src 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7/amlearn/utils/tests 2019-10-16T09:09:07 copying amlearn/utils/tests/test_data.py -> build/lib.linux-armv7l-3.7/amlearn/utils/tests 2019-10-16T09:09:07 copying amlearn/utils/tests/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/utils/tests 2019-10-16T09:09:07 copying amlearn/utils/tests/test_backend.py -> build/lib.linux-armv7l-3.7/amlearn/utils/tests 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7/amlearn/learn/sklearn_patch 2019-10-16T09:09:07 copying amlearn/learn/sklearn_patch/_validation.py -> build/lib.linux-armv7l-3.7/amlearn/learn/sklearn_patch 2019-10-16T09:09:07 copying amlearn/learn/sklearn_patch/_split.py -> build/lib.linux-armv7l-3.7/amlearn/learn/sklearn_patch 2019-10-16T09:09:07 copying amlearn/learn/sklearn_patch/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/learn/sklearn_patch 2019-10-16T09:09:07 creating build/lib.linux-armv7l-3.7/amlearn/learn/tests 2019-10-16T09:09:07 copying amlearn/learn/tests/test_classifier.py -> build/lib.linux-armv7l-3.7/amlearn/learn/tests 2019-10-16T09:09:07 copying amlearn/learn/tests/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/learn/tests 2019-10-16T09:09:07 copying amlearn/utils/amlearn_logging.yaml -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/default_environment.yaml -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 copying amlearn/utils/PTE.json -> build/lib.linux-armv7l-3.7/amlearn/utils 2019-10-16T09:09:07 running build_ext 2019-10-16T09:09:07 customize UnixCCompiler 2019-10-16T09:09:07 customize UnixCCompiler using build_ext 2019-10-16T09:09:07 get_default_fcompiler: matching types: '['gnu95', 'intel', 'lahey', 'pg', 'absoft', 'nag', 'vast', 'compaq', 'intele', 'intelem', 'gnu', 'g95', 'pathf95', 'nagfor']' 2019-10-16T09:09:07 customize Gnu95FCompiler 2019-10-16T09:09:07 Found executable /usr/bin/gfortran 2019-10-16T09:09:07 customize Gnu95FCompiler 2019-10-16T09:09:07 customize Gnu95FCompiler using build_ext 2019-10-16T09:09:07 building 'amlearn.featurize.src.utils' extension 2019-10-16T09:09:07 compiling C sources 2019-10-16T09:09:07 C compiler: arm-linux-gnueabihf-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC 2019-10-16T09:09:07 creating build/temp.linux-armv7l-3.7/build 2019-10-16T09:09:07 creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7 2019-10-16T09:09:07 creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn 2019-10-16T09:09:07 creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:07 creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src 2019-10-16T09:09:07 creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/build 2019-10-16T09:09:07 creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7 2019-10-16T09:09:07 creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn 2019-10-16T09:09:07 creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:07 creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src 2019-10-16T09:09:07 compile options: '-Ibuild/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m -c' 2019-10-16T09:09:08 arm-linux-gnueabihf-gcc: build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c 2019-10-16T09:09:08 arm-linux-gnueabihf-gcc: build/src.linux-armv7l-3.7/amlearn/featurize/src/utilsmodule.c 2019-10-16T09:09:11 In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1822, 2019-10-16T09:09:11 from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2019-10-16T09:09:11 from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2019-10-16T09:09:11 from build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.h:13, 2019-10-16T09:09:11 from build/src.linux-armv7l-3.7/amlearn/featurize/src/utilsmodule.c:16: 2019-10-16T09:09:11 /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2019-10-16T09:09:11 #warning "Using deprecated NumPy API, disable it with " \ 2019-10-16T09:09:11 ^~~~~~~ 2019-10-16T09:09:11 In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1822, 2019-10-16T09:09:11 from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2019-10-16T09:09:11 from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4, 2019-10-16T09:09:11 from build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.h:13, 2019-10-16T09:09:11 from build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src/fortranobject.c:2: 2019-10-16T09:09:11 /usr/lib/python3/dist-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2019-10-16T09:09:11 #warning "Using deprecated NumPy API, disable it with " \ 2019-10-16T09:09:11 ^~~~~~~ 2019-10-16T09:09:11 build/src.linux-armv7l-3.7/amlearn/featurize/src/utilsmodule.c:109:12: warning: ‘f2py_size’ defined but not used [-Wunused-function] 2019-10-16T09:09:11 static int f2py_size(PyArrayObject* var, ...) 2019-10-16T09:09:11 ^~~~~~~~~ 2019-10-16T09:09:14 compiling Fortran 90 module sources 2019-10-16T09:09:14 creating build/temp.linux-armv7l-3.7/amlearn 2019-10-16T09:09:14 creating build/temp.linux-armv7l-3.7/amlearn/featurize 2019-10-16T09:09:14 creating build/temp.linux-armv7l-3.7/amlearn/featurize/src 2019-10-16T09:09:14 Fortran f77 compiler: /usr/bin/gfortran -Wall -g -ffixed-form -fno-second-underscore -fPIC -O3 -funroll-loops 2019-10-16T09:09:14 Fortran f90 compiler: /usr/bin/gfortran -Wall -g -fno-second-underscore -fPIC -O3 -funroll-loops 2019-10-16T09:09:14 Fortran fix compiler: /usr/bin/gfortran -Wall -g -ffixed-form -fno-second-underscore -Wall -g -fno-second-underscore -fPIC -O3 -funroll-loops 2019-10-16T09:09:14 compile options: '-Ibuild/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m -c' 2019-10-16T09:09:14 extra options: '-Jbuild/temp.linux-armv7l-3.7/amlearn/featurize/src -Ibuild/temp.linux-armv7l-3.7/amlearn/featurize/src' 2019-10-16T09:09:14 gfortran:f90: amlearn/featurize/src/utils.f90 2019-10-16T09:09:17 amlearn/featurize/src/utils.f90:259:15: 2019-10-16T09:09:17 REAL(16) :: std 2019-10-16T09:09:17 1 2019-10-16T09:09:17 Error: Kind 16 not supported for type REAL at (1) 2019-10-16T09:09:17 amlearn/featurize/src/utils.f90:285:18: 2019-10-16T09:09:17 std = std + (list(atom) - mean)**2 2019-10-16T09:09:17 1 2019-10-16T09:09:17 Warning: Possible change of value in conversion from REAL(8) to REAL(4) at (1) [-Wconversion] 2019-10-16T09:09:17 error: Command "/usr/bin/gfortran -Wall -g -fno-second-underscore -fPIC -O3 -funroll-loops -Ibuild/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/featurize/src -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m -c -c amlearn/featurize/src/utils.f90 -o build/temp.linux-armv7l-3.7/amlearn/featurize/src/utils.o -Jbuild/temp.linux-armv7l-3.7/amlearn/featurize/src -Ibuild/temp.linux-armv7l-3.7/amlearn/featurize/src" failed with exit status 1 2019-10-16T09:09:18 Building wheel for amlearn (setup.py): finished with status 'error' 2019-10-16T09:09:18 ERROR: Failed building wheel for amlearn 2019-10-16T09:09:18 Running setup.py clean for amlearn 2019-10-16T09:09:18 Running command /usr/bin/python3 -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-wheel-xlo4j3pp/amlearn/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' clean --all 2019-10-16T09:09:20 running clean 2019-10-16T09:09:20 removing 'build/temp.linux-armv7l-3.7' (and everything under it) 2019-10-16T09:09:20 removing 'build/lib.linux-armv7l-3.7' (and everything under it) 2019-10-16T09:09:20 'build/bdist.linux-armv7l' does not exist -- can't clean it 2019-10-16T09:09:20 'build/scripts.linux-armv7l-3.7' does not exist -- can't clean it 2019-10-16T09:09:20 Failed to build amlearn 2019-10-16T09:09:20 Cleaning up... 2019-10-16T09:09:20 Removing source in /tmp/pip-wheel-xlo4j3pp/amlearn 2019-10-16T09:09:20 Removed build tracker '/tmp/pip-req-tracker-kn32smos' 2019-10-16T09:09:20 ERROR: Failed to build one or more wheels 2019-10-16T09:09:20 Exception information: 2019-10-16T09:09:20 Traceback (most recent call last): 2019-10-16T09:09:20 File "/usr/local/lib/python3.7/dist-packages/pip/_internal/cli/base_command.py", line 178, in main 2019-10-16T09:09:20 status = self.run(options, args) 2019-10-16T09:09:20 File "/usr/local/lib/python3.7/dist-packages/pip/_internal/commands/wheel.py", line 178, in run 2019-10-16T09:09:20 "Failed to build one or more wheels" 2019-10-16T09:09:20 pip._internal.exceptions.CommandError: Failed to build one or more wheels