Started ../../scripts/make-features.py 2020-04-15 14:44:40.792556 Fasta: /home/badri/PDNET/v4-pssmbugfix/data/casp13/fasta/T1003.fasta ID: T1003 Outdir: /home/badri/PDNET/v4-pssmbugfix/data/casp13/raw-features/T1003 A3mfile: /home/badri/PDNET/v4-pssmbugfix/data/casp13/a3m_from_trRosetta/casp13_a3m/T1003.a3m L: 0 Seq: Predict secondary structures.. SS already done! Predict solvent accessibility.. cp: cannot stat '/home/badri/PDNET/v4-pssmbugfix/data/casp13/a3m_from_trRosetta/casp13_a3m/T1003.a3m': No such file or directory SA already done! Using existing a3m alignment file.. Clean A3M.. Genrate aln from a3m.. 83536 T1003.a3m 41768 T1003.aln ALN already done! Run alnstats.. alnstats already done! Run CCMpred.. ALN already done! Run FreeContact.. ALN already done! Generate PSSM from alignment (write pssm).. 2020-04-15 14:44:47.181045: I tensorflow/stream_executor/platform/default/dso_loader.cc:44] Successfully opened dynamic library libcuda.so.1 2020-04-15 14:44:47.186207: E tensorflow/stream_executor/cuda/cuda_driver.cc:318] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected 2020-04-15 14:44:47.186270: I tensorflow/stream_executor/cuda/cuda_diagnostics.cc:169] retrieving CUDA diagnostic information for host: prayog02 2020-04-15 14:44:47.186282: I tensorflow/stream_executor/cuda/cuda_diagnostics.cc:176] hostname: prayog02 2020-04-15 14:44:47.186380: I tensorflow/stream_executor/cuda/cuda_diagnostics.cc:200] libcuda reported version is: 415.27.0 2020-04-15 14:44:47.186427: I tensorflow/stream_executor/cuda/cuda_diagnostics.cc:204] kernel reported version is: 415.27.0 2020-04-15 14:44:47.186437: I tensorflow/stream_executor/cuda/cuda_diagnostics.cc:310] kernel version seems to match DSO: 415.27.0 2020-04-15 14:44:47.187241: I tensorflow/core/platform/cpu_feature_guard.cc:142] Your CPU supports instructions that this TensorFlow binary was not compiled to use: AVX2 AVX512F FMA 2020-04-15 14:44:47.219099: I tensorflow/core/platform/profile_utils/cpu_utils.cc:94] CPU Frequency: 1700000000 Hz 2020-04-15 14:44:47.220107: I tensorflow/compiler/xla/service/service.cc:168] XLA service 0x5339870 executing computations on platform Host. Devices: 2020-04-15 14:44:47.220177: I tensorflow/compiler/xla/service/service.cc:175] StreamExecutor device (0): , 2020-04-15 14:44:47.226955: W tensorflow/core/framework/cpu_allocator_impl.cc:81] Allocation of 1663034688 exceeds 10% of system memory. 2020-04-15 14:44:47.908902: W tensorflow/core/framework/cpu_allocator_impl.cc:81] Allocation of 1663034688 exceeds 10% of system memory. 2020-04-15 14:44:48.547411: W tensorflow/core/framework/cpu_allocator_impl.cc:81] Allocation of 6978263296 exceeds 10% of system memory. 2020-04-15 14:47:36.089101: W tensorflow/core/framework/cpu_allocator_impl.cc:81] Allocation of 1744565824 exceeds 10% of system memory. 2020-04-15 14:47:36.556174: W tensorflow/core/framework/cpu_allocator_impl.cc:81] Allocation of 6978263296 exceeds 10% of system memory. msa1hot (41768, 474, 21) w (41768,) f1d_pssm (474, 22) saved T1003.pssm.npy Write feature file.. Traceback (most recent call last): File "../../scripts/make-features.py", line 318, in assert c[1] == seq[i] IndexError: string index out of range