2019-10-16T00:35:58 Created temporary directory: /tmp/pip-ephem-wheel-cache-7yy45ahb
2019-10-16T00:35:58 Created temporary directory: /tmp/pip-req-tracker-f2yqyqig
2019-10-16T00:35:58 Created requirements tracker '/tmp/pip-req-tracker-f2yqyqig'
2019-10-16T00:35:58 Created temporary directory: /tmp/pip-wheel-c_1uscf2
2019-10-16T00:35:58 Collecting amlearn==0.1.0
2019-10-16T00:35:58   1 location(s) to search for versions of amlearn:
2019-10-16T00:35:58   * https://pypi.org/simple/amlearn/
2019-10-16T00:35:58   Getting page https://pypi.org/simple/amlearn/
2019-10-16T00:35:58   Analyzing links from page https://pypi.org/simple/amlearn/
2019-10-16T00:35:58     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
2019-10-16T00:35:58     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
2019-10-16T00:35:58     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
2019-10-16T00:35:58     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
2019-10-16T00:35:58   Using version 0.1.0 (newest of versions: 0.1.0)
2019-10-16T00:35:58   Created temporary directory: /tmp/pip-unpack-niaojy9p
2019-10-16T00:35:59   Downloading https://files.pythonhosted.org/packages/c9/69/69f3bd8acf04b6af467a52a212de838bf9cc412724b0197b1523b8703808/amlearn-0.1.0.tar.gz (82kB)
2019-10-16T00:35:59   Downloading from URL https://files.pythonhosted.org/packages/c9/69/69f3bd8acf04b6af467a52a212de838bf9cc412724b0197b1523b8703808/amlearn-0.1.0.tar.gz#sha256=20a099bc7da2324c247c1f5bd4c61cbf207ad59248a0c161fac0a08d11112f36 (from https://pypi.org/simple/amlearn/)
2019-10-16T00:35:59   Added amlearn==0.1.0 from https://files.pythonhosted.org/packages/c9/69/69f3bd8acf04b6af467a52a212de838bf9cc412724b0197b1523b8703808/amlearn-0.1.0.tar.gz#sha256=20a099bc7da2324c247c1f5bd4c61cbf207ad59248a0c161fac0a08d11112f36 to build tracker '/tmp/pip-req-tracker-f2yqyqig'
2019-10-16T00:35:59     Running setup.py (path:/tmp/pip-wheel-c_1uscf2/amlearn/setup.py) egg_info for package amlearn
2019-10-16T00:35:59     Running command python setup.py egg_info
2019-10-16T00:36:01     running egg_info
2019-10-16T00:36:01     running build_src
2019-10-16T00:36:01     build_src
2019-10-16T00:36:01     building extension "amlearn.fmodules" sources
2019-10-16T00:36:01     f2py options: []
2019-10-16T00:36:01     f2py:> build/src.linux-armv7l-3.7/amlearn/fmodulesmodule.c
2019-10-16T00:36:01     creating build
2019-10-16T00:36:01     creating build/src.linux-armv7l-3.7
2019-10-16T00:36:01     creating build/src.linux-armv7l-3.7/amlearn
2019-10-16T00:36:05     Reading fortran codes...
2019-10-16T00:36:05     	Reading file 'amlearn/featurize/src/utils.f90' (format:free)
2019-10-16T00:36:05     	Reading file 'amlearn/featurize/src/voronoi_nn.f90' (format:free)
2019-10-16T00:36:05     {'before': '', 'this': 'use', 'after': ':: distance '}
2019-10-16T00:36:05     Line #49 in amlearn/featurize/src/voronoi_nn.f90:"    use :: distance "
2019-10-16T00:36:05     	analyzeline: Could not crack the use statement.
2019-10-16T00:36:05     	Reading file 'amlearn/featurize/src/voronoi_stats.f90' (format:free)
2019-10-16T00:36:05     {'before': '', 'this': 'use', 'after': ':: a_stats, only: all_stats '}
2019-10-16T00:36:05     Line #205 in amlearn/featurize/src/voronoi_stats.f90:"        use :: a_stats, only: all_stats "
2019-10-16T00:36:05     	analyzeline: Could not crack the use statement.
2019-10-16T00:36:05     {'before': '', 'this': 'use', 'after': ':: a_stats, only: all_stats '}
2019-10-16T00:36:05     Line #230 in amlearn/featurize/src/voronoi_stats.f90:"        use :: a_stats, only: all_stats "
2019-10-16T00:36:05     	analyzeline: Could not crack the use statement.
2019-10-16T00:36:05     {'before': '', 'this': 'use', 'after': ':: a_stats, only : all_stats '}
2019-10-16T00:36:05     Line #318 in amlearn/featurize/src/voronoi_stats.f90:"        use :: a_stats, only : all_stats "
2019-10-16T00:36:05     	analyzeline: Could not crack the use statement.
2019-10-16T00:36:05     {'before': '', 'this': 'use', 'after': ':: c_stats, only : customize_stats '}
2019-10-16T00:36:05     Line #320 in amlearn/featurize/src/voronoi_stats.f90:"        use :: c_stats, only : customize_stats "
2019-10-16T00:36:05     	analyzeline: Could not crack the use statement.
2019-10-16T00:36:05     	Reading file 'amlearn/featurize/src/boop.f90' (format:free)
2019-10-16T00:36:05     {'before': '', 'this': 'use', 'after': ':: angle '}
2019-10-16T00:36:05     Line #9 in amlearn/featurize/src/boop.f90:"        use :: angle "
2019-10-16T00:36:05     	analyzeline: Could not crack the use statement.
2019-10-16T00:36:05     	Reading file 'amlearn/featurize/src/mro_stats.f90' (format:free)
2019-10-16T00:36:05     {'before': '', 'this': 'use', 'after': ':: c_stats '}
2019-10-16T00:36:05     Line #5 in amlearn/featurize/src/mro_stats.f90:"        use :: c_stats "
2019-10-16T00:36:05     	analyzeline: Could not crack the use statement.
2019-10-16T00:36:05     	Reading file 'amlearn/featurize/src/neighbor_data.f90' (format:free)
2019-10-16T00:36:05     	Reading file 'amlearn/featurize/src/distance_stats.f90' (format:free)
2019-10-16T00:36:05     {'before': '', 'this': 'use', 'after': ':: a_stats '}
2019-10-16T00:36:05     Line #17 in amlearn/featurize/src/distance_stats.f90:"        use :: a_stats "
2019-10-16T00:36:05     	analyzeline: Could not crack the use statement.
2019-10-16T00:36:05     	Reading file 'amlearn/featurize/src/distance_nn.f90' (format:free)
2019-10-16T00:36:05     {'before': '', 'this': 'use', 'after': ':: distance '}
2019-10-16T00:36:05     Line #29 in amlearn/featurize/src/distance_nn.f90:"    use :: distance "
2019-10-16T00:36:05     	analyzeline: Could not crack the use statement.
2019-10-16T00:36:05     {'before': '', 'this': 'use', 'after': ':: quicksort '}
2019-10-16T00:36:05     Line #31 in amlearn/featurize/src/distance_nn.f90:"    use :: quicksort "
2019-10-16T00:36:05     	analyzeline: Could not crack the use statement.
2019-10-16T00:36:05     Post-processing...
2019-10-16T00:36:05     	Block: fmodules
2019-10-16T00:36:05     			Block: determinant_func
2019-10-16T00:36:05     				Block: determinant
2019-10-16T00:36:05     			Block: distance
2019-10-16T00:36:05     				Block: distance_info
2019-10-16T00:36:05     			Block: quicksort
2019-10-16T00:36:05     				Block: quick_sort
2019-10-16T00:36:05     			Block: cg_function
2019-10-16T00:36:05     				Block: calculate_cg
2019-10-16T00:36:05     			Block: angle
2019-10-16T00:36:05     				Block: angle_info
2019-10-16T00:36:05     			Block: c_stats
2019-10-16T00:36:05     				Block: customize_stats
2019-10-16T00:36:05     			Block: a_stats
2019-10-16T00:36:05     				Block: all_stats
2019-10-16T00:36:05     			Block: determinant
2019-10-16T00:36:05     			Block: voronoi
2019-10-16T00:36:05     			Block: voronoi_index
2019-10-16T00:36:05     			Block: i_fold_symmetry
2019-10-16T00:36:05     			Block: line_percent
2019-10-16T00:36:05     {}
2019-10-16T00:36:05     In: :fmodules:amlearn/featurize/src/voronoi_stats.f90:character_motif
2019-10-16T00:36:05     vars2fortran: No typespec for argument "n_voro".
2019-10-16T00:36:05     {}
2019-10-16T00:36:05     In: :fmodules:amlearn/featurize/src/voronoi_stats.f90:character_motif
2019-10-16T00:36:05     vars2fortran: No typespec for argument "n_target".
2019-10-16T00:36:05     			Block: character_motif
2019-10-16T00:36:05     			Block: area_wt_i_fold_symmetry
2019-10-16T00:36:05     			Block: vol_wt_i_fold_symmetry
2019-10-16T00:36:05     			Block: voronoi_area_stats
2019-10-16T00:36:05     			Block: voronoi_area_stats_separate
2019-10-16T00:36:05     			Block: voronoi_vol_stats
2019-10-16T00:36:05     			Block: voronoi_vol_stats_separate
2019-10-16T00:36:05     			Block: voronoi_distance_stats
2019-10-16T00:36:05     			Block: calculate_boop
2019-10-16T00:36:05     {'attrspec': ['intent(in)']}
2019-10-16T00:36:05     In: :fmodules:amlearn/featurize/src/mro_stats.f90:sro_to_mro
2019-10-16T00:36:05     vars2fortran: No typespec for argument "n_neighbor_limit".
2019-10-16T00:36:05     			Block: sro_to_mro
2019-10-16T00:36:05     			Block: add_neighbor_features
2019-10-16T00:36:05     			Block: cn_dist
2019-10-16T00:36:05     			Block: cutoff_distance_stats
2019-10-16T00:36:05     			Block: distance_neighbor
2019-10-16T00:36:05     Post-processing (stage 2)...
2019-10-16T00:36:05     	Block: fmodules
2019-10-16T00:36:05     		Block: unknown_interface
2019-10-16T00:36:05     			Block: determinant_func
2019-10-16T00:36:05     				Block: determinant
2019-10-16T00:36:05     			Block: distance
2019-10-16T00:36:05     				Block: distance_info
2019-10-16T00:36:05     			Block: quicksort
2019-10-16T00:36:05     				Block: quick_sort
2019-10-16T00:36:05     			Block: cg_function
2019-10-16T00:36:05     				Block: calculate_cg
2019-10-16T00:36:05     			Block: angle
2019-10-16T00:36:05     				Block: angle_info
2019-10-16T00:36:05     			Block: c_stats
2019-10-16T00:36:05     				Block: customize_stats
2019-10-16T00:36:05     			Block: a_stats
2019-10-16T00:36:05     				Block: all_stats
2019-10-16T00:36:05     			Block: determinant
2019-10-16T00:36:05     			Block: voronoi
2019-10-16T00:36:05     			Block: voronoi_index
2019-10-16T00:36:05     			Block: i_fold_symmetry
2019-10-16T00:36:05     			Block: line_percent
2019-10-16T00:36:05     			Block: character_motif
2019-10-16T00:36:05     			Block: area_wt_i_fold_symmetry
2019-10-16T00:36:05     			Block: vol_wt_i_fold_symmetry
2019-10-16T00:36:05     			Block: voronoi_area_stats
2019-10-16T00:36:05     			Block: voronoi_area_stats_separate
2019-10-16T00:36:05     			Block: voronoi_vol_stats
2019-10-16T00:36:05     			Block: voronoi_vol_stats_separate
2019-10-16T00:36:05     			Block: voronoi_distance_stats
2019-10-16T00:36:05     			Block: calculate_boop
2019-10-16T00:36:05     			Block: sro_to_mro
2019-10-16T00:36:05     			Block: add_neighbor_features
2019-10-16T00:36:05     			Block: cn_dist
2019-10-16T00:36:05     			Block: cutoff_distance_stats
2019-10-16T00:36:05     			Block: distance_neighbor
2019-10-16T00:36:05     Building modules...
2019-10-16T00:36:05     	Building module "fmodules"...
2019-10-16T00:36:05     		Constructing wrapper function "determinant"...
2019-10-16T00:36:05     		  deter_value = determinant(face)
2019-10-16T00:36:05     		Constructing wrapper function "voronoi"...
2019-10-16T00:36:05     		  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])
2019-10-16T00:36:05     		Constructing wrapper function "voronoi_index"...
2019-10-16T00:36:05     		  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])
2019-10-16T00:36:05     		Constructing wrapper function "i_fold_symmetry"...
2019-10-16T00:36:05     		  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])
2019-10-16T00:36:05     		Constructing wrapper function "line_percent"...
2019-10-16T00:36:05     		  percent_list = line_percent(percent_list,value_list,[n_atoms,n_values])
2019-10-16T00:36:05     		Constructing wrapper function "character_motif"...
2019-10-16T00:36:05     		  motif_one_hot = character_motif(motif_one_hot,voronoi_index_list,edge_min,target_voro_idx,frank_kasper,[n_atoms,n_voro,n_target])
2019-10-16T00:36:05     		Constructing wrapper function "area_wt_i_fold_symmetry"...
2019-10-16T00:36:05     		  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])
2019-10-16T00:36:05     		Constructing wrapper function "vol_wt_i_fold_symmetry"...
2019-10-16T00:36:05     		  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])
2019-10-16T00:36:05     		Constructing wrapper function "voronoi_area_stats"...
2019-10-16T00:36:05     		  area_stats = voronoi_area_stats(area_stats,n_neighbor_list,neighbor_area_lists,[n_atoms,neighbor_num_limit])
2019-10-16T00:36:05     		Constructing wrapper function "voronoi_area_stats_separate"...
2019-10-16T00:36:05     		  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])
2019-10-16T00:36:05     		Constructing wrapper function "voronoi_vol_stats"...
2019-10-16T00:36:05     		  vol_stats = voronoi_vol_stats(vol_stats,n_neighbor_list,neighbor_vol_lists,[n_atoms,neighbor_num_limit])
2019-10-16T00:36:05     		Constructing wrapper function "voronoi_vol_stats_separate"...
2019-10-16T00:36:05     		  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])
2019-10-16T00:36:05     		Constructing wrapper function "voronoi_distance_stats"...
2019-10-16T00:36:05     		  distance_stats = voronoi_distance_stats(distance_stats,n_neighbor_list,neighbor_distance_lists,[n_atoms,neighbor_num_limit])
2019-10-16T00:36:05     		Constructing wrapper function "calculate_boop"...
2019-10-16T00:36:05     		  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])
2019-10-16T00:36:05     		Constructing wrapper function "sro_to_mro"...
2019-10-16T00:36:05     		  mro_feature = sro_to_mro(sro_feature,n_neighbor_list,neighbor_lists,stats_types,mro_feature,[n_atoms,n_neighbor_limit,sum_stats_types])
2019-10-16T00:36:05     		Constructing wrapper function "add_neighbor_features"...
2019-10-16T00:36:05     		  features_new = add_neighbor_features(pred_last,neigh_voro,probs,features_new,[n_atoms,n_neighs,n_probs,n_features])
2019-10-16T00:36:05     		Constructing wrapper function "cn_dist"...
2019-10-16T00:36:06     		  cn = cn_dist(n_neighbor_list)
2019-10-16T00:36:06     		Constructing wrapper function "cutoff_distance_stats"...
2019-10-16T00:36:06     		  cutoff_distance_stats(distance_stats,n_neighbor_list,neighbor_distance_lists,[n_atoms,n_neighbor_limit])
2019-10-16T00:36:06     		Constructing wrapper function "distance_neighbor"...
2019-10-16T00:36:06     		  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])
2019-10-16T00:36:06     		Constructing F90 module support for "determinant_func"...
2019-10-16T00:36:06     			Constructing wrapper function "determinant_func.determinant"...
2019-10-16T00:36:06     			  deter_value = determinant(matrix)
2019-10-16T00:36:06     		Constructing F90 module support for "distance"...
2019-10-16T00:36:06     			Constructing wrapper function "distance.distance_info"...
2019-10-16T00:36:06     			  r,d = distance_info(atom_coords_i,atom_coords_j,bds,pbc)
2019-10-16T00:36:06     		Constructing F90 module support for "quicksort"...
2019-10-16T00:36:06     		Creating wrapper for Fortran subroutine "quick_sort"("quick_sort")...
2019-10-16T00:36:06     			Constructing wrapper function "quicksort.quick_sort"...
2019-10-16T00:36:06     			  quick_sort(array,sort_col,sort_index_min,sort_index_max)
2019-10-16T00:36:06     		Constructing F90 module support for "cg_function"...
2019-10-16T00:36:06     		Creating wrapper for Fortran function "calculate_cg"("calculate_cg")...
2019-10-16T00:36:06     			Constructing wrapper function "cg_function.calculate_cg"...
2019-10-16T00:36:06     			  cg = calculate_cg(half_l_min,half_l_max)
2019-10-16T00:36:06     		Constructing F90 module support for "angle"...
2019-10-16T00:36:06     			Constructing wrapper function "angle.angle_info"...
2019-10-16T00:36:06     			  ksai,theta = angle_info(atom_coords_i,atom_coords_j,bds,pbc)
2019-10-16T00:36:06     		Constructing F90 module support for "c_stats"...
2019-10-16T00:36:06     		Creating wrapper for Fortran function "customize_stats"("customize_stats")...
2019-10-16T00:36:06     			Constructing wrapper function "c_stats.customize_stats"...
2019-10-16T00:36:06     			  stats = customize_stats(list,stats_types,stats_types_sum,self_prop)
2019-10-16T00:36:06     		Constructing F90 module support for "a_stats"...
2019-10-16T00:36:06     		Creating wrapper for Fortran function "all_stats"("all_stats")...
2019-10-16T00:36:06     			Constructing wrapper function "a_stats.all_stats"...
2019-10-16T00:36:06     			  stats = all_stats(list,[len_bn])
2019-10-16T00:36:06     	Wrote C/API module "fmodules" to file "build/src.linux-armv7l-3.7/amlearn/fmodulesmodule.c"
2019-10-16T00:36:06     	Fortran 90 wrappers are saved to "build/src.linux-armv7l-3.7/amlearn/fmodules-f2pywrappers2.f90"
2019-10-16T00:36:06       adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/fortranobject.c' to sources.
2019-10-16T00:36:06       adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn' to include_dirs.
2019-10-16T00:36:06     creating build/src.linux-armv7l-3.7/build
2019-10-16T00:36:06     creating build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7
2019-10-16T00:36:06     creating build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn
2019-10-16T00:36:06     copying /usr/lib/python3/dist-packages/numpy/f2py/src/fortranobject.c -> build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn
2019-10-16T00:36:06     copying /usr/lib/python3/dist-packages/numpy/f2py/src/fortranobject.h -> build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn
2019-10-16T00:36:06       adding 'build/src.linux-armv7l-3.7/amlearn/fmodules-f2pywrappers2.f90' to sources.
2019-10-16T00:36:06     build_src: building npy-pkg config files
2019-10-16T00:36:06     creating pip-egg-info/amlearn.egg-info
2019-10-16T00:36:06     writing pip-egg-info/amlearn.egg-info/PKG-INFO
2019-10-16T00:36:06     writing dependency_links to pip-egg-info/amlearn.egg-info/dependency_links.txt
2019-10-16T00:36:06     writing requirements to pip-egg-info/amlearn.egg-info/requires.txt
2019-10-16T00:36:06     writing top-level names to pip-egg-info/amlearn.egg-info/top_level.txt
2019-10-16T00:36:06     writing manifest file 'pip-egg-info/amlearn.egg-info/SOURCES.txt'
2019-10-16T00:36:06     reading manifest file 'pip-egg-info/amlearn.egg-info/SOURCES.txt'
2019-10-16T00:36:06     writing manifest file 'pip-egg-info/amlearn.egg-info/SOURCES.txt'
2019-10-16T00:36:06     rmbadname1: Replacing "len" with "len_bn".
2019-10-16T00:36:06     rmbadname1: Replacing "len" with "len_bn".
2019-10-16T00:36:06     rmbadname1: Replacing "min" with "min_bn".
2019-10-16T00:36:06     rmbadname1: Replacing "max" with "max_bn".
2019-10-16T00:36:06     appenddecl: "dimension" not implemented.
2019-10-16T00:36:06     appenddecl: "dimension" not implemented.
2019-10-16T00:36:06     rmbadname1: Replacing "len" with "len_bn".
2019-10-16T00:36:06     "object of type 'type' has no len()" in evaluating 'len(list)' (available names: [])
2019-10-16T00:36:06     appenddecl: "dimension" not implemented.
2019-10-16T00:36:06     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
2019-10-16T00:36:06   Source in /tmp/pip-wheel-c_1uscf2/amlearn has version 0.1.0, which satisfies requirement amlearn==0.1.0 from https://files.pythonhosted.org/packages/c9/69/69f3bd8acf04b6af467a52a212de838bf9cc412724b0197b1523b8703808/amlearn-0.1.0.tar.gz#sha256=20a099bc7da2324c247c1f5bd4c61cbf207ad59248a0c161fac0a08d11112f36
2019-10-16T00:36:06   Removed amlearn==0.1.0 from https://files.pythonhosted.org/packages/c9/69/69f3bd8acf04b6af467a52a212de838bf9cc412724b0197b1523b8703808/amlearn-0.1.0.tar.gz#sha256=20a099bc7da2324c247c1f5bd4c61cbf207ad59248a0c161fac0a08d11112f36 from build tracker '/tmp/pip-req-tracker-f2yqyqig'
2019-10-16T00:36:06 Building wheels for collected packages: amlearn
2019-10-16T00:36:06   Created temporary directory: /tmp/pip-wheel-sr8ab_wl
2019-10-16T00:36:06   Building wheel for amlearn (setup.py): started
2019-10-16T00:36:06   Destination directory: /tmp/pip-wheel-sr8ab_wl
2019-10-16T00:36:06   Running command /usr/bin/python3 -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-wheel-c_1uscf2/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-sr8ab_wl
2019-10-16T00:36:08   running bdist_wheel
2019-10-16T00:36:08   running build
2019-10-16T00:36:08   running config_cc
2019-10-16T00:36:08   unifing config_cc, config, build_clib, build_ext, build commands --compiler options
2019-10-16T00:36:08   running config_fc
2019-10-16T00:36:08   unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options
2019-10-16T00:36:08   running build_src
2019-10-16T00:36:08   build_src
2019-10-16T00:36:08   building extension "amlearn.fmodules" sources
2019-10-16T00:36:08   f2py options: []
2019-10-16T00:36:08     adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/fortranobject.c' to sources.
2019-10-16T00:36:08     adding 'build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn' to include_dirs.
2019-10-16T00:36:08     adding 'build/src.linux-armv7l-3.7/amlearn/fmodules-f2pywrappers2.f90' to sources.
2019-10-16T00:36:08   build_src: building npy-pkg config files
2019-10-16T00:36:08   running build_py
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7/scripts
2019-10-16T00:36:08   copying scripts/feature_violinplot.py -> build/lib.linux-armv7l-3.7/scripts
2019-10-16T00:36:08   copying scripts/distribution.py -> build/lib.linux-armv7l-3.7/scripts
2019-10-16T00:36:08   copying scripts/featurize_bp_symmfunc.py -> build/lib.linux-armv7l-3.7/scripts
2019-10-16T00:36:08   copying scripts/pdp_plot.py -> build/lib.linux-armv7l-3.7/scripts
2019-10-16T00:36:08   copying scripts/fractal_analysis.py -> build/lib.linux-armv7l-3.7/scripts
2019-10-16T00:36:08   copying scripts/__init__.py -> build/lib.linux-armv7l-3.7/scripts
2019-10-16T00:36:08   copying scripts/featurize_interstice.py -> build/lib.linux-armv7l-3.7/scripts
2019-10-16T00:36:08   copying scripts/generalization.py -> build/lib.linux-armv7l-3.7/scripts
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7/amlearn
2019-10-16T00:36:08   copying amlearn/_version.py -> build/lib.linux-armv7l-3.7/amlearn
2019-10-16T00:36:08   copying amlearn/__init__.py -> build/lib.linux-armv7l-3.7/amlearn
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7/amlearn/featurize
2019-10-16T00:36:08   copying amlearn/featurize/pipeline.py -> build/lib.linux-armv7l-3.7/amlearn/featurize
2019-10-16T00:36:08   copying amlearn/featurize/nearest_neighbor.py -> build/lib.linux-armv7l-3.7/amlearn/featurize
2019-10-16T00:36:08   copying amlearn/featurize/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/featurize
2019-10-16T00:36:08   copying amlearn/featurize/symmetry_function.py -> build/lib.linux-armv7l-3.7/amlearn/featurize
2019-10-16T00:36:08   copying amlearn/featurize/medium_range_order.py -> build/lib.linux-armv7l-3.7/amlearn/featurize
2019-10-16T00:36:08   copying amlearn/featurize/base.py -> build/lib.linux-armv7l-3.7/amlearn/featurize
2019-10-16T00:36:08   copying amlearn/featurize/short_range_order.py -> build/lib.linux-armv7l-3.7/amlearn/featurize
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/logging.py -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/backend.py -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/packing.py -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/verbose.py -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/check.py -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/basetest.py -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/directory.py -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/data.py -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7/amlearn/learn
2019-10-16T00:36:08   copying amlearn/learn/regressor.py -> build/lib.linux-armv7l-3.7/amlearn/learn
2019-10-16T00:36:08   copying amlearn/learn/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/learn
2019-10-16T00:36:08   copying amlearn/learn/preprocessor.py -> build/lib.linux-armv7l-3.7/amlearn/learn
2019-10-16T00:36:08   copying amlearn/learn/base.py -> build/lib.linux-armv7l-3.7/amlearn/learn
2019-10-16T00:36:08   copying amlearn/learn/classifier.py -> build/lib.linux-armv7l-3.7/amlearn/learn
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7/amlearn/featurize/tests
2019-10-16T00:36:08   copying amlearn/featurize/tests/test_short_range_order.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/tests
2019-10-16T00:36:08   copying amlearn/featurize/tests/test_nearest_neighbor.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/tests
2019-10-16T00:36:08   copying amlearn/featurize/tests/test_featurizer_pipeline.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/tests
2019-10-16T00:36:08   copying amlearn/featurize/tests/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/tests
2019-10-16T00:36:08   copying amlearn/featurize/tests/test_medium_range_order.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/tests
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7/amlearn/featurize/src
2019-10-16T00:36:08   copying amlearn/featurize/src/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/featurize/src
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7/amlearn/utils/tests
2019-10-16T00:36:08   copying amlearn/utils/tests/test_backend.py -> build/lib.linux-armv7l-3.7/amlearn/utils/tests
2019-10-16T00:36:08   copying amlearn/utils/tests/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/utils/tests
2019-10-16T00:36:08   copying amlearn/utils/tests/test_data.py -> build/lib.linux-armv7l-3.7/amlearn/utils/tests
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7/amlearn/learn/tests
2019-10-16T00:36:08   copying amlearn/learn/tests/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/learn/tests
2019-10-16T00:36:08   copying amlearn/learn/tests/test_classifier.py -> build/lib.linux-armv7l-3.7/amlearn/learn/tests
2019-10-16T00:36:08   creating build/lib.linux-armv7l-3.7/amlearn/learn/sklearn_patch
2019-10-16T00:36:08   copying amlearn/learn/sklearn_patch/_split.py -> build/lib.linux-armv7l-3.7/amlearn/learn/sklearn_patch
2019-10-16T00:36:08   copying amlearn/learn/sklearn_patch/_validation.py -> build/lib.linux-armv7l-3.7/amlearn/learn/sklearn_patch
2019-10-16T00:36:08   copying amlearn/learn/sklearn_patch/__init__.py -> build/lib.linux-armv7l-3.7/amlearn/learn/sklearn_patch
2019-10-16T00:36:08   copying amlearn/utils/default_environment.yaml -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/amlearn_logging.yaml -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   copying amlearn/utils/PTE.json -> build/lib.linux-armv7l-3.7/amlearn/utils
2019-10-16T00:36:08   running build_ext
2019-10-16T00:36:09   customize UnixCCompiler
2019-10-16T00:36:09   customize UnixCCompiler using build_ext
2019-10-16T00:36:09   get_default_fcompiler: matching types: '['gnu95', 'intel', 'lahey', 'pg', 'absoft', 'nag', 'vast', 'compaq', 'intele', 'intelem', 'gnu', 'g95', 'pathf95', 'nagfor']'
2019-10-16T00:36:09   customize Gnu95FCompiler
2019-10-16T00:36:09   Found executable /usr/bin/gfortran
2019-10-16T00:36:09   customize Gnu95FCompiler
2019-10-16T00:36:09   customize Gnu95FCompiler using build_ext
2019-10-16T00:36:09   building 'amlearn.fmodules' extension
2019-10-16T00:36:09   compiling C sources
2019-10-16T00:36:09   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

2019-10-16T00:36:09   creating build/temp.linux-armv7l-3.7/build
2019-10-16T00:36:09   creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7
2019-10-16T00:36:09   creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn
2019-10-16T00:36:09   creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/build
2019-10-16T00:36:09   creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7
2019-10-16T00:36:09   creating build/temp.linux-armv7l-3.7/build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn
2019-10-16T00:36:09   compile options: '-Ibuild/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m -c'
2019-10-16T00:36:09   arm-linux-gnueabihf-gcc: build/src.linux-armv7l-3.7/amlearn/fmodulesmodule.carm-linux-gnueabihf-gcc: build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/fortranobject.c

2019-10-16T00:36:10   In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1822,
2019-10-16T00:36:10                    from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
2019-10-16T00:36:10                    from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
2019-10-16T00:36:10                    from build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/fortranobject.h:13,
2019-10-16T00:36:10                    from build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/fortranobject.c:2:
2019-10-16T00:36:10   /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]
2019-10-16T00:36:10    #warning "Using deprecated NumPy API, disable it with " \
2019-10-16T00:36:10     ^~~~~~~
2019-10-16T00:36:10   In file included from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarraytypes.h:1822,
2019-10-16T00:36:10                    from /usr/lib/python3/dist-packages/numpy/core/include/numpy/ndarrayobject.h:12,
2019-10-16T00:36:10                    from /usr/lib/python3/dist-packages/numpy/core/include/numpy/arrayobject.h:4,
2019-10-16T00:36:10                    from build/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn/fortranobject.h:13,
2019-10-16T00:36:10                    from build/src.linux-armv7l-3.7/amlearn/fmodulesmodule.c:16:
2019-10-16T00:36:10   /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]
2019-10-16T00:36:10    #warning "Using deprecated NumPy API, disable it with " \
2019-10-16T00:36:10     ^~~~~~~
2019-10-16T00:36:10   build/src.linux-armv7l-3.7/amlearn/fmodulesmodule.c:112:12: warning: ‘f2py_size’ defined but not used [-Wunused-function]
2019-10-16T00:36:10    static int f2py_size(PyArrayObject* var, ...)
2019-10-16T00:36:10               ^~~~~~~~~
2019-10-16T00:36:15   compiling Fortran 90 module sources
2019-10-16T00:36:15   creating build/temp.linux-armv7l-3.7/amlearn
2019-10-16T00:36:15   Fortran f77 compiler: /usr/bin/gfortran -Wall -g -ffixed-form -fno-second-underscore -fPIC -O3 -funroll-loops
2019-10-16T00:36:15   Fortran f90 compiler: /usr/bin/gfortran -Wall -g -fno-second-underscore -fPIC -O3 -funroll-loops
2019-10-16T00:36:15   Fortran fix compiler: /usr/bin/gfortran -Wall -g -ffixed-form -fno-second-underscore -Wall -g -fno-second-underscore -fPIC -O3 -funroll-loops
2019-10-16T00:36:15   creating build/temp.linux-armv7l-3.7/amlearn/featurize
2019-10-16T00:36:15   creating build/temp.linux-armv7l-3.7/amlearn/featurize/src
2019-10-16T00:36:15   compile options: '-Ibuild/src.linux-armv7l-3.7/build/src.linux-armv7l-3.7/amlearn -I/usr/lib/python3/dist-packages/numpy/core/include -I/usr/include/python3.7m -c'
2019-10-16T00:36:15   extra options: '-Jbuild/temp.linux-armv7l-3.7/amlearn -Ibuild/temp.linux-armv7l-3.7/amlearn'
2019-10-16T00:36:15   gfortran:f90: amlearn/featurize/src/utils.f90
2019-10-16T00:36:17   amlearn/featurize/src/utils.f90:259:15:

2019-10-16T00:36:17            REAL(16) :: std
2019-10-16T00:36:17                  1
2019-10-16T00:36:17   Error: Kind 16 not supported for type REAL at (1)
2019-10-16T00:36:17   amlearn/featurize/src/utils.f90:285:18:

2019-10-16T00:36:17                std = std + (list(atom) - mean)**2
2019-10-16T00:36:17                     1
2019-10-16T00:36:17   Warning: Possible change of value in conversion from REAL(8) to REAL(4) at (1) [-Wconversion]
2019-10-16T00:36:18   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 -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 -Ibuild/temp.linux-armv7l-3.7/amlearn" failed with exit status 1
2019-10-16T00:36:18   Building wheel for amlearn (setup.py): finished with status 'error'
2019-10-16T00:36:18   ERROR: Failed building wheel for amlearn
2019-10-16T00:36:18   Running setup.py clean for amlearn
2019-10-16T00:36:18   Running command /usr/bin/python3 -u -c 'import setuptools, tokenize;__file__='"'"'/tmp/pip-wheel-c_1uscf2/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
2019-10-16T00:36:20   running clean
2019-10-16T00:36:20   removing 'build/temp.linux-armv7l-3.7' (and everything under it)
2019-10-16T00:36:20   removing 'build/lib.linux-armv7l-3.7' (and everything under it)
2019-10-16T00:36:20   'build/bdist.linux-armv7l' does not exist -- can't clean it
2019-10-16T00:36:20   'build/scripts.linux-armv7l-3.7' does not exist -- can't clean it
2019-10-16T00:36:20 Failed to build amlearn
2019-10-16T00:36:20 Cleaning up...
2019-10-16T00:36:20   Removing source in /tmp/pip-wheel-c_1uscf2/amlearn
2019-10-16T00:36:20 Removed build tracker '/tmp/pip-req-tracker-f2yqyqig'
2019-10-16T00:36:20 ERROR: Failed to build one or more wheels
2019-10-16T00:36:20 Exception information:
2019-10-16T00:36:20 Traceback (most recent call last):
2019-10-16T00:36:20   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/cli/base_command.py", line 178, in main
2019-10-16T00:36:20     status = self.run(options, args)
2019-10-16T00:36:20   File "/usr/local/lib/python3.7/dist-packages/pip/_internal/commands/wheel.py", line 178, in run
2019-10-16T00:36:20     "Failed to build one or more wheels"
2019-10-16T00:36:20 pip._internal.exceptions.CommandError: Failed to build one or more wheels