Open avilella opened 1 year ago
I get this error when running the predict.py code, this is on an Ubuntu Linux 22.04 with an NVIDIA RTX A6000 GPU.
What could be the issue? Could it be that this is using the wrong version of some python or CUDA libraries?
Thanks in advance,
$ lsb_release -a No LSB modules are available. Distributor ID: Ubuntu Description: Ubuntu 22.04.3 LTS Release: 22.04 Codename: jammy $ dpkg -l nvidia-driver-535 Desired=Unknown/Install/Remove/Purge/Hold | Status=Not/Inst/Conf-files/Unpacked/halF-conf/Half-inst/trig-aWait/Trig-pend |/ Err?=(none)/Reinst-required (Status,Err: uppercase=bad) ||/ Name Version Architecture Description +++-=================-===========================-============-================================= ii nvidia-driver-535 535.129.03-0ubuntu0.22.04.1 amd64 NVIDIA driver metapackage $ dpkg -l nvidia-cuda-toolkit Desired=Unknown/Install/Remove/Purge/Hold | Status=Not/Inst/Conf-files/Unpacked/halF-conf/Half-inst/trig-aWait/Trig-pend |/ Err?=(none)/Reinst-required (Status,Err: uppercase=bad) ||/ Name Version Architecture Description +++-===================-===============-============-================================= ii nvidia-cuda-toolkit 11.5.1-1ubuntu1 amd64 NVIDIA CUDA development toolkit Error: N=1 L=491 Traceback (most recent call last): File "/data2/cynicjon/RoseTTAFold2/network/predict.py", line 493, in <module> pred.predict( File "/data2/cynicjon/RoseTTAFold2/network/predict.py", line 318, in predict self.run_prediction( File "/data2/cynicjon/RoseTTAFold2/network/predict.py", line 392, in run_prediction logit_s, logit_aa_s, _, logits_pae, p_bind, xyz_prev, alpha, symmsub, pred_lddt, msa_prev, pair_prev, state_prev = self.model( File "/home/petmedix/.local/lib/python3.10/site-packages/torch/nn/modules/module.py", line 1501, in _call_impl return forward_call(*args, **kwargs) File "/data2/cynicjon/RoseTTAFold2/network/RoseTTAFoldModel.py", line 86, in forward msa, pair, R, T, alpha, state, symmsub = self.simulator( File "/home/petmedix/.local/lib/python3.10/site-packages/torch/nn/modules/module.py", line 1501, in _call_impl return forward_call(*args, **kwargs) File "/data2/cynicjon/RoseTTAFold2/network/Track_module.py", line 659, in forward msa_full, pair, R_in, T_in, state, alpha, symmsub = self.extra_block[i_m](msa_full, pair, File "/home/petmedix/.local/lib/python3.10/site-packages/torch/nn/modules/module.py", line 1501, in _call_impl return forward_call(*args, **kwargs) File "/data2/cynicjon/RoseTTAFold2/network/Track_module.py", line 562, in forward R, T, state, alpha = self.str2str( File "/home/petmedix/.local/lib/python3.10/site-packages/torch/nn/modules/module.py", line 1501, in _call_impl return forward_call(*args, **kwargs) File "/home/petmedix/.local/lib/python3.10/site-packages/torch/amp/autocast_mode.py", line 14, in decorate_autocast return func(*args, **kwargs) File "/data2/cynicjon/RoseTTAFold2/network/Track_module.py", line 500, in forward shift = self.se3(G, node, l1_feats, edge_feats) File "/home/petmedix/.local/lib/python3.10/site-packages/torch/nn/modules/module.py", line 1501, in _call_impl return forward_call(*args, **kwargs) File "/data2/cynicjon/RoseTTAFold2/network/SE3_network.py", line 89, in forward return self.se3(G, node_features, edge_features) File "/home/petmedix/.local/lib/python3.10/site-packages/torch/nn/modules/module.py", line 1501, in _call_impl return forward_call(*args, **kwargs) File "/usr/local/lib/python3.10/dist-packages/se3_transformer-1.0.0-py3.10.egg/se3_transformer/model/transformer.py", line 185, in forward File "/home/petmedix/.local/lib/python3.10/site-packages/torch/nn/modules/module.py", line 1501, in _call_impl return forward_call(*args, **kwargs) File "/usr/local/lib/python3.10/dist-packages/se3_transformer-1.0.0-py3.10.egg/se3_transformer/model/transformer.py", line 47, in forward File "/home/petmedix/.local/lib/python3.10/site-packages/torch/nn/modules/module.py", line 1501, in _call_impl return forward_call(*args, **kwargs) File "/usr/local/lib/python3.10/dist-packages/se3_transformer-1.0.0-py3.10.egg/se3_transformer/model/layers/attention.py", line 166, in forward File "/home/petmedix/.local/lib/python3.10/site-packages/torch/nn/modules/module.py", line 1501, in _call_impl return forward_call(*args, **kwargs) File "/usr/local/lib/python3.10/dist-packages/se3_transformer-1.0.0-py3.10.egg/se3_transformer/model/layers/convolution.py", line 319, in forward File "/usr/local/lib/python3.10/dist-packages/dgl/view.py", line 179, in __call__ return self._graph.all_edges(*args, **kwargs) File "/usr/local/lib/python3.10/dist-packages/dgl/heterograph.py", line 3589, in all_edges src, dst, eid = self._graph.edges(self.get_etype_id(etype), order) File "/usr/local/lib/python3.10/dist-packages/dgl/heterograph_index.py", line 696, in edges edge_array = _CAPI_DGLHeteroEdges(self, int(etype), order) File "dgl/_ffi/_cython/./function.pxi", line 295, in dgl._ffi._cy3.core.FunctionBase.__call__ File "dgl/_ffi/_cython/./function.pxi", line 227, in dgl._ffi._cy3.core.FuncCall File "dgl/_ffi/_cython/./function.pxi", line 217, in dgl._ffi._cy3.core.FuncCall3 dgl._ffi.base.DGLError: [11:50:51] /opt/dgl/src/array/array.cc:42: Operator Range does not support cuda device. Stack trace: [bt] (0) /usr/local/lib/python3.10/dist-packages/dgl/libdgl.so(+0xf9f6f) [0x7f53c24f9f6f] [bt] (1) /usr/local/lib/python3.10/dist-packages/dgl/libdgl.so(dgl::aten::Range(long, long, unsigned char, DGLContext)+0x117) [0x7f53c24fb1b7] [bt] (2) /usr/local/lib/python3.10/dist-packages/dgl/libdgl.so(dgl::UnitGraph::COO::Edges(unsigned long, std::string const&) const+0x9b) [0x7f53c2a17bbb] [bt] (3) /usr/local/lib/python3.10/dist-packages/dgl/libdgl.so(dgl::UnitGraph::Edges(unsigned long, std::string const&) const+0x9e) [0x7f53c2a1095e] [bt] (4) /usr/local/lib/python3.10/dist-packages/dgl/libdgl.so(dgl::HeteroGraph::Edges(unsigned long, std::string const&) const+0x2a) [0x7f53c29112ca] [bt] (5) /usr/local/lib/python3.10/dist-packages/dgl/libdgl.so(+0x51ab51) [0x7f53c291ab51] [bt] (6) /usr/local/lib/python3.10/dist-packages/dgl/libdgl.so(DGLFuncCall+0x48) [0x7f53c28a9598] [bt] (7) /usr/local/lib/python3.10/dist-packages/dgl/_ffi/_cy3/core.cpython-310-x86_64-linux-gnu.so(+0x15413) [0x7f53c1015413] [bt] (8) /usr/local/lib/python3.10/dist-packages/dgl/_ffi/_cy3/core.cpython-310-x86_64-linux-gnu.so(+0x15c2b) [0x7f53c1015c2b]
I get this error when running the predict.py code, this is on an Ubuntu Linux 22.04 with an NVIDIA RTX A6000 GPU.
What could be the issue? Could it be that this is using the wrong version of some python or CUDA libraries?
Thanks in advance,