| ========================================== |
| Job ID: 5402617 |
| Job Name: baseline_ccfm |
| Start: Sat Mar 14 14:29:41 JST 2026 |
| Node: b0018 |
| GPU: NVIDIA H100, 95830 MiB |
| NVIDIA H100, 95830 MiB |
| NVIDIA H100, 95830 MiB |
| NVIDIA H100, 95830 MiB |
| Run: baseline_ccfm_aligned (topk=15, no negative edge) |
| ========================================== |
| ipex flag is deprecated, will be removed in Accelerate v1.10. From 2.7.0, PyTorch has all needed optimizations for Intel CPU and XPU. |
| The following values were not passed to `accelerate launch` and had defaults used instead: |
| More than one GPU was found, enabling multi-GPU training. |
| If this was unintended please pass in `--num_processes=1`. |
| `--num_machines` was set to a value of `1` |
| `--mixed_precision` was set to a value of `'no'` |
| `--dynamo_backend` was set to a value of `'no'` |
| To avoid this warning pass in values for each of the problematic parameters or run `accelerate config`. |
| [W314 14:31:08.382724459 socket.cpp:755] [c10d] The client socket cannot be initialized to connect to [localhost]:29500 (errno: 97 - Address family not supported by protocol). |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/models/scGPT/model.py:1392: UserWarning: flash_attn is not installed |
| warnings.warn("flash_attn is not installed") |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/models/scGPT/model.py:1392: UserWarning: flash_attn is not installed |
| warnings.warn("flash_attn is not installed") |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/models/scGPT/model.py:1392: UserWarning: flash_attn is not installed |
| warnings.warn("flash_attn is not installed") |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/models/scGPT/model.py:1392: UserWarning: flash_attn is not installed |
| warnings.warn("flash_attn is not installed") |
| [W314 14:31:54.254519617 socket.cpp:755] [c10d] The client socket cannot be initialized to connect to [localhost]:29500 (errno: 97 - Address family not supported by protocol). |
| [W314 14:31:54.267059682 socket.cpp:755] [c10d] The client socket cannot be initialized to connect to [localhost]:29500 (errno: 97 - Address family not supported by protocol). |
| [W314 14:31:54.276467349 socket.cpp:755] [c10d] The client socket cannot be initialized to connect to [localhost]:29500 (errno: 97 - Address family not supported by protocol). |
| [W314 14:31:54.276713777 socket.cpp:755] [c10d] The client socket cannot be initialized to connect to [localhost]:29500 (errno: 97 - Address family not supported by protocol). |
| WARNING:accelerate.utils.other:Detected kernel version 4.18.0, which is below the recommended minimum of 5.5.0; this can cause the process to hang. It is recommended to upgrade the kernel to the minimum version or higher. |
| FlowConfig(model_type='origin', batch_size=48, ntoken=512, d_model=128, lr=5e-05, steps=200000, eta_min=1e-06, devices='1', test_only=False, data_name='norman', perturbation_function='crisper', noise_type='Gaussian', poisson_alpha=0.8, poisson_target_sum=-1, print_every=10000, mode='predict_y', result_path='./result/baseline_ccfm_aligned', perturbation_fusion_method='sum', fusion_method='differential_perceiver', infer_top_gene=1000, n_top_genes=5000, checkpoint_path='', gamma=0.5, split_method='additive', use_mmd_loss=True, fold=1, use_negative_edge=False, topk=15) |
| Warning: AHR is not in the gene namesWarning: AHR is not in the gene namesWarning: AHR is not in the gene names |
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| Warning: ARID1A is not in the gene namesWarning: AHR is not in the gene namesWarning: ARID1A is not in the gene namesWarning: ARID1A is not in the gene names |
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| Warning: ARRDC3 is not in the gene namesWarning: ARID1A is not in the gene namesWarning: ARRDC3 is not in the gene namesWarning: ARRDC3 is not in the gene names |
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| Warning: ATL1 is not in the gene namesWarning: ARRDC3 is not in the gene namesWarning: ATL1 is not in the gene namesWarning: ATL1 is not in the gene names |
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| Warning: BAK1 is not in the gene namesWarning: ATL1 is not in the gene namesWarning: BAK1 is not in the gene namesWarning: BAK1 is not in the gene names |
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| Warning: BCL2L11 is not in the gene namesWarning: BAK1 is not in the gene namesWarning: BCL2L11 is not in the gene namesWarning: BCL2L11 is not in the gene names |
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| Warning: BCORL1 is not in the gene namesWarning: BCORL1 is not in the gene namesWarning: BCL2L11 is not in the gene namesWarning: BCORL1 is not in the gene names |
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| Warning: BPGM is not in the gene namesWarning: BPGM is not in the gene names |
| Warning: BCORL1 is not in the gene names |
| Warning: BPGM is not in the gene namesWarning: C19orf26 is not in the gene names |
| Warning: C19orf26 is not in the gene names |
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| Warning: C19orf26 is not in the gene namesWarning: BPGM is not in the gene namesWarning: C3orf72 is not in the gene namesWarning: C3orf72 is not in the gene names |
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| Warning: C3orf72 is not in the gene namesWarning: C19orf26 is not in the gene namesWarning: CBFA2T3 is not in the gene namesWarning: CBFA2T3 is not in the gene names |
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| Warning: CBFA2T3 is not in the gene namesWarning: CBL is not in the gene namesWarning: C3orf72 is not in the gene namesWarning: CBL is not in the gene names |
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| Warning: CBL is not in the gene namesWarning: CDKN1A is not in the gene namesWarning: CDKN1A is not in the gene names |
| Warning: CBFA2T3 is not in the gene names |
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| Warning: CDKN1A is not in the gene names |
| Warning: CDKN1B is not in the gene namesWarning: CDKN1B is not in the gene names |
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| Warning: CBL is not in the gene namesWarning: CDKN1B is not in the gene namesWarning: CDKN1C is not in the gene namesWarning: CDKN1C is not in the gene names |
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| Warning: CDKN1C is not in the gene namesWarning: CEBPA is not in the gene namesWarning: CEBPA is not in the gene names |
| Warning: CDKN1A is not in the gene names |
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| Warning: CEBPA is not in the gene names |
| Warning: CEBPB is not in the gene namesWarning: CEBPB is not in the gene names |
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| Warning: CDKN1B is not in the gene namesWarning: CEBPB is not in the gene namesWarning: CEBPE is not in the gene namesWarning: CEBPE is not in the gene names |
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| Warning: CEBPE is not in the gene namesWarning: CDKN1C is not in the gene namesWarning: CELF2 is not in the gene namesWarning: CELF2 is not in the gene names |
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| Warning: CELF2 is not in the gene namesWarning: CEBPA is not in the gene namesWarning: CITED1 is not in the gene namesWarning: CITED1 is not in the gene names |
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| Warning: CITED1 is not in the gene namesWarning: CEBPB is not in the gene namesWarning: CKS1B is not in the gene namesWarning: CKS1B is not in the gene names |
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| Warning: CKS1B is not in the gene namesWarning: CEBPE is not in the gene namesWarning: CLDN6 is not in the gene namesWarning: CLDN6 is not in the gene names |
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| Warning: CLDN6 is not in the gene namesWarning: CELF2 is not in the gene namesWarning: CNN1 is not in the gene namesWarning: CNN1 is not in the gene names |
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| Warning: CNN1 is not in the gene namesWarning: CITED1 is not in the gene namesWarning: CNNM4 is not in the gene namesWarning: CNNM4 is not in the gene names |
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| Warning: CNNM4 is not in the gene namesWarning: COL1A1 is not in the gene namesWarning: CKS1B is not in the gene namesWarning: COL1A1 is not in the gene names |
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| Warning: COL1A1 is not in the gene namesWarning: COL2A1 is not in the gene namesWarning: CLDN6 is not in the gene namesWarning: COL2A1 is not in the gene names |
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| Warning: COL2A1 is not in the gene namesWarning: CSRNP1 is not in the gene namesWarning: CSRNP1 is not in the gene names |
| Warning: CNN1 is not in the gene names |
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| Warning: CSRNP1 is not in the gene names |
| Warning: DLX2 is not in the gene namesWarning: DLX2 is not in the gene names |
| Warning: CNNM4 is not in the gene names |
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| Warning: DLX2 is not in the gene names |
| Warning: DUSP9 is not in the gene namesWarning: DUSP9 is not in the gene names |
| Warning: COL1A1 is not in the gene names |
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| Warning: DUSP9 is not in the gene names |
| Warning: EGR1 is not in the gene namesWarning: EGR1 is not in the gene names |
|
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| Warning: COL2A1 is not in the gene names |
| Warning: EGR1 is not in the gene namesWarning: ELMSAN1 is not in the gene names |
| Warning: ELMSAN1 is not in the gene names |
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| Warning: CSRNP1 is not in the gene names |
| Warning: ELMSAN1 is not in the gene namesWarning: ETS2 is not in the gene names |
| Warning: ETS2 is not in the gene names |
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| Warning: DLX2 is not in the gene names |
| Warning: ETS2 is not in the gene namesWarning: FEV is not in the gene names |
| Warning: FEV is not in the gene names |
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| Warning: DUSP9 is not in the gene names |
| Warning: FEV is not in the gene namesWarning: FOSB is not in the gene names |
| Warning: FOSB is not in the gene names |
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| Warning: EGR1 is not in the gene names |
| Warning: FOSB is not in the gene namesWarning: FOXA1 is not in the gene names |
| Warning: FOXA1 is not in the gene names |
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| Warning: ELMSAN1 is not in the gene namesWarning: FOXA1 is not in the gene namesWarning: FOXA3 is not in the gene namesWarning: FOXA3 is not in the gene names |
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| Warning: ETS2 is not in the gene namesWarning: FOXA3 is not in the gene namesWarning: FOXF1 is not in the gene namesWarning: FOXF1 is not in the gene names |
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| Warning: FEV is not in the gene namesWarning: FOXF1 is not in the gene namesWarning: FOXL2 is not in the gene namesWarning: FOXL2 is not in the gene names |
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| Warning: FOXL2 is not in the gene namesWarning: FOSB is not in the gene namesWarning: FOXO4 is not in the gene namesWarning: FOXO4 is not in the gene names |
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| Warning: FOXO4 is not in the gene namesWarning: FOXA1 is not in the gene namesWarning: GLB1L2 is not in the gene namesWarning: GLB1L2 is not in the gene names |
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| Warning: GLB1L2 is not in the gene namesWarning: FOXA3 is not in the gene namesWarning: HES7 is not in the gene namesWarning: HES7 is not in the gene names |
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| Warning: HES7 is not in the gene namesWarning: FOXF1 is not in the gene namesWarning: HK2 is not in the gene namesWarning: HK2 is not in the gene names |
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| Warning: HK2 is not in the gene namesWarning: HNF4A is not in the gene namesWarning: FOXL2 is not in the gene namesWarning: HNF4A is not in the gene names |
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| Warning: HNF4A is not in the gene namesWarning: HOXA13 is not in the gene namesWarning: FOXO4 is not in the gene namesWarning: HOXA13 is not in the gene names |
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| Warning: HOXA13 is not in the gene namesWarning: HOXB9 is not in the gene namesWarning: GLB1L2 is not in the gene namesWarning: HOXB9 is not in the gene names |
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| Warning: HOXB9 is not in the gene namesWarning: HOXC13 is not in the gene namesWarning: HES7 is not in the gene namesWarning: HOXC13 is not in the gene names |
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| Warning: HOXC13 is not in the gene namesWarning: IER5L is not in the gene namesWarning: IER5L is not in the gene namesWarning: HK2 is not in the gene names |
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| Warning: IER5L is not in the gene namesWarning: IGDCC3 is not in the gene namesWarning: IGDCC3 is not in the gene namesWarning: HNF4A is not in the gene names |
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| Warning: IGDCC3 is not in the gene namesWarning: IKZF3 is not in the gene namesWarning: IKZF3 is not in the gene namesWarning: HOXA13 is not in the gene names |
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| Warning: IKZF3 is not in the gene namesWarning: IRF1 is not in the gene namesWarning: IRF1 is not in the gene namesWarning: HOXB9 is not in the gene names |
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| Warning: IRF1 is not in the gene namesWarning: ISL2 is not in the gene namesWarning: ISL2 is not in the gene namesWarning: HOXC13 is not in the gene names |
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| Warning: ISL2 is not in the gene namesWarning: JUN is not in the gene namesWarning: JUN is not in the gene namesWarning: IER5L is not in the gene names |
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| Warning: JUN is not in the gene namesWarning: KIAA1804 is not in the gene namesWarning: KIAA1804 is not in the gene namesWarning: IGDCC3 is not in the gene names |
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| Warning: KIAA1804 is not in the gene namesWarning: KIF18B is not in the gene namesWarning: KIF18B is not in the gene namesWarning: IKZF3 is not in the gene names |
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| Warning: KIF18B is not in the gene namesWarning: KIF2C is not in the gene namesWarning: KIF2C is not in the gene names |
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| Warning: IRF1 is not in the gene names |
| Warning: KIF2C is not in the gene namesWarning: KLF1 is not in the gene names |
| Warning: KLF1 is not in the gene names |
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| Warning: ISL2 is not in the gene names |
| Warning: KLF1 is not in the gene namesWarning: KMT2A is not in the gene names |
| Warning: KMT2A is not in the gene names |
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| Warning: JUN is not in the gene names |
| Warning: KMT2A is not in the gene namesWarning: LHX1 is not in the gene names |
| Warning: LHX1 is not in the gene namesWarning: KIAA1804 is not in the gene names |
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| Warning: LHX1 is not in the gene namesWarning: LYL1 is not in the gene namesWarning: LYL1 is not in the gene namesWarning: KIF18B is not in the gene names |
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| Warning: LYL1 is not in the gene namesWarning: MAML2 is not in the gene namesWarning: MAML2 is not in the gene namesWarning: KIF2C is not in the gene names |
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| Warning: MAML2 is not in the gene namesWarning: MAP2K3 is not in the gene namesWarning: MAP2K3 is not in the gene namesWarning: KLF1 is not in the gene names |
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| Warning: MAP2K3 is not in the gene namesWarning: MAP2K6 is not in the gene namesWarning: MAP2K6 is not in the gene namesWarning: KMT2A is not in the gene names |
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| Warning: MAP2K6 is not in the gene namesWarning: MAP4K3 is not in the gene namesWarning: MAP4K3 is not in the gene namesWarning: LHX1 is not in the gene names |
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| Warning: MAP4K3 is not in the gene namesWarning: MAP4K5 is not in the gene namesWarning: MAP4K5 is not in the gene namesWarning: LYL1 is not in the gene names |
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| Warning: MAP4K5 is not in the gene namesWarning: MAP7D1 is not in the gene namesWarning: MAP7D1 is not in the gene namesWarning: MAML2 is not in the gene names |
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| Warning: MAP7D1 is not in the gene namesWarning: MAPK1 is not in the gene namesWarning: MAPK1 is not in the gene namesWarning: MAP2K3 is not in the gene names |
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| Warning: MAPK1 is not in the gene namesWarning: MEIS1 is not in the gene namesWarning: MEIS1 is not in the gene namesWarning: MAP2K6 is not in the gene names |
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| Warning: MEIS1 is not in the gene namesWarning: MIDN is not in the gene namesWarning: MIDN is not in the gene names |
| Warning: MAP4K3 is not in the gene names |
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| Warning: MIDN is not in the gene names |
| Warning: NCL is not in the gene namesWarning: NCL is not in the gene names |
| Warning: MAP4K5 is not in the gene names |
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| Warning: NCL is not in the gene names |
| Warning: NIT1 is not in the gene namesWarning: NIT1 is not in the gene names |
| Warning: MAP7D1 is not in the gene names |
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| Warning: NIT1 is not in the gene names |
| Warning: OSR2 is not in the gene namesWarning: OSR2 is not in the gene names |
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| Warning: MAPK1 is not in the gene names |
| Warning: OSR2 is not in the gene namesWarning: PLK4 is not in the gene names |
| Warning: PLK4 is not in the gene names |
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| Warning: MEIS1 is not in the gene names |
| Warning: PLK4 is not in the gene namesWarning: POU3F2 is not in the gene names |
| Warning: POU3F2 is not in the gene names |
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| Warning: MIDN is not in the gene names |
| Warning: POU3F2 is not in the gene namesWarning: PRDM1 is not in the gene names |
| Warning: PRDM1 is not in the gene names |
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| Warning: NCL is not in the gene names |
| Warning: PRDM1 is not in the gene namesWarning: PRTG is not in the gene names |
| Warning: PRTG is not in the gene names |
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| Warning: NIT1 is not in the gene names |
| Warning: PRTG is not in the gene namesWarning: PTPN1 is not in the gene names |
| Warning: PTPN1 is not in the gene names |
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| Warning: OSR2 is not in the gene names |
| Warning: PTPN1 is not in the gene namesWarning: PTPN12 is not in the gene names |
| Warning: PTPN12 is not in the gene names |
|
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| Warning: PLK4 is not in the gene names |
| Warning: PTPN12 is not in the gene namesWarning: PTPN13 is not in the gene names |
| Warning: PTPN13 is not in the gene names |
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| Warning: POU3F2 is not in the gene namesWarning: PTPN13 is not in the gene namesWarning: PTPN9 is not in the gene namesWarning: PTPN9 is not in the gene names |
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| Warning: PRDM1 is not in the gene namesWarning: PTPN9 is not in the gene namesWarning: RHOXF2BB is not in the gene namesWarning: RHOXF2BB is not in the gene names |
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| Warning: PRTG is not in the gene namesWarning: RHOXF2BB is not in the gene namesWarning: RREB1 is not in the gene namesWarning: RREB1 is not in the gene names |
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| Warning: PTPN1 is not in the gene namesWarning: RREB1 is not in the gene namesWarning: RUNX1T1 is not in the gene namesWarning: RUNX1T1 is not in the gene names |
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| Warning: PTPN12 is not in the gene namesWarning: RUNX1T1 is not in the gene namesWarning: S1PR2 is not in the gene namesWarning: S1PR2 is not in the gene names |
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| Warning: PTPN13 is not in the gene namesWarning: S1PR2 is not in the gene namesWarning: SAMD1 is not in the gene namesWarning: SAMD1 is not in the gene names |
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| Warning: PTPN9 is not in the gene namesWarning: SAMD1 is not in the gene namesWarning: SET is not in the gene namesWarning: SET is not in the gene names |
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| Warning: RHOXF2BB is not in the gene namesWarning: SET is not in the gene namesWarning: SGK1 is not in the gene namesWarning: SGK1 is not in the gene names |
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| Warning: RREB1 is not in the gene namesWarning: SGK1 is not in the gene namesWarning: SLC38A2 is not in the gene namesWarning: SLC38A2 is not in the gene names |
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| Warning: RUNX1T1 is not in the gene namesWarning: SLC38A2 is not in the gene namesWarning: SLC4A1 is not in the gene namesWarning: SLC4A1 is not in the gene names |
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| Warning: S1PR2 is not in the gene namesWarning: SLC4A1 is not in the gene namesWarning: SLC6A9 is not in the gene namesWarning: SLC6A9 is not in the gene names |
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| Warning: SAMD1 is not in the gene namesWarning: SLC6A9 is not in the gene namesWarning: SNAI1 is not in the gene namesWarning: SNAI1 is not in the gene names |
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| Warning: SET is not in the gene namesWarning: SNAI1 is not in the gene namesWarning: SPI1 is not in the gene namesWarning: SPI1 is not in the gene names |
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| Warning: SGK1 is not in the gene namesWarning: SPI1 is not in the gene namesWarning: STIL is not in the gene namesWarning: STIL is not in the gene names |
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| Warning: SLC38A2 is not in the gene namesWarning: STIL is not in the gene namesWarning: TBX2 is not in the gene namesWarning: TBX2 is not in the gene names |
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| Warning: SLC4A1 is not in the gene namesWarning: TBX2 is not in the gene namesWarning: TBX3 is not in the gene namesWarning: TBX3 is not in the gene names |
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| Warning: SLC6A9 is not in the gene namesWarning: TBX3 is not in the gene namesWarning: TGFBR2 is not in the gene namesWarning: TGFBR2 is not in the gene names |
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| Warning: SNAI1 is not in the gene namesWarning: TGFBR2 is not in the gene namesWarning: TMSB4X is not in the gene namesWarning: TMSB4X is not in the gene names |
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| Warning: SPI1 is not in the gene namesWarning: TMSB4X is not in the gene namesWarning: TP73 is not in the gene namesWarning: TP73 is not in the gene names |
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| Warning: STIL is not in the gene namesWarning: TP73 is not in the gene namesWarning: TSC22D1 is not in the gene namesWarning: TSC22D1 is not in the gene names |
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| Warning: TBX2 is not in the gene namesWarning: TSC22D1 is not in the gene namesWarning: UBASH3A is not in the gene namesWarning: UBASH3A is not in the gene names |
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| Warning: TBX3 is not in the gene namesWarning: UBASH3A is not in the gene namesWarning: UBASH3B is not in the gene namesWarning: UBASH3B is not in the gene names |
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| Warning: TGFBR2 is not in the gene namesWarning: UBASH3B is not in the gene namesWarning: ZBTB1 is not in the gene namesWarning: ZBTB1 is not in the gene names |
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| Warning: TMSB4X is not in the gene namesWarning: ZBTB1 is not in the gene namesWarning: ZBTB10 is not in the gene namesWarning: ZBTB10 is not in the gene names |
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| Warning: TP73 is not in the gene namesWarning: ZBTB10 is not in the gene namesWarning: ZBTB25 is not in the gene namesWarning: ZBTB25 is not in the gene names |
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| Warning: TSC22D1 is not in the gene namesWarning: ZBTB25 is not in the gene namesWarning: ZC3HAV1 is not in the gene namesWarning: ZC3HAV1 is not in the gene names |
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| Warning: UBASH3A is not in the gene namesWarning: ZC3HAV1 is not in the gene namesWarning: ZNF318 is not in the gene namesWarning: ZNF318 is not in the gene names |
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| Warning: UBASH3B is not in the gene namesWarning: ZNF318 is not in the gene namesWarning: ctrl is not in the gene namesWarning: ctrl is not in the gene names |
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| Warning: ZBTB1 is not in the gene namesWarning: ctrl is not in the gene names |
|
|
| Warning: ZBTB10 is not in the gene names |
| Warning: ZBTB25 is not in the gene names |
| Warning: ZC3HAV1 is not in the gene names |
| Warning: ZNF318 is not in the gene names |
| Warning: ctrl is not in the gene names |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:185: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['condition'] = self.adata.obs['condition'].str.replace('ctrl', 'control') |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:185: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['condition'] = self.adata.obs['condition'].str.replace('ctrl', 'control') |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:185: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['condition'] = self.adata.obs['condition'].str.replace('ctrl', 'control') |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:185: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['condition'] = self.adata.obs['condition'].str.replace('ctrl', 'control') |
| /home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/lib64/python3.11/site-packages/scanpy/preprocessing/_highly_variable_genes.py:705: ImplicitModificationWarning: Trying to modify attribute `._uns` of view, initializing view as actual. |
| adata.uns["hvg"] = {"flavor": flavor} |
| /home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/lib64/python3.11/site-packages/scanpy/preprocessing/_highly_variable_genes.py:705: ImplicitModificationWarning: Trying to modify attribute `._uns` of view, initializing view as actual. |
| adata.uns["hvg"] = {"flavor": flavor} |
| /home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/lib64/python3.11/site-packages/scanpy/preprocessing/_highly_variable_genes.py:705: ImplicitModificationWarning: Trying to modify attribute `._uns` of view, initializing view as actual. |
| adata.uns["hvg"] = {"flavor": flavor} |
| /home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/lib64/python3.11/site-packages/scanpy/preprocessing/_highly_variable_genes.py:705: ImplicitModificationWarning: Trying to modify attribute `._uns` of view, initializing view as actual. |
| adata.uns["hvg"] = {"flavor": flavor} |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:277: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['perturbation_covariates'] = self.adata.obs[perturbation_covariates].apply(lambda x: '+'.join(x), axis=1) |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:277: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['perturbation_covariates'] = self.adata.obs[perturbation_covariates].apply(lambda x: '+'.join(x), axis=1) |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:277: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['perturbation_covariates'] = self.adata.obs[perturbation_covariates].apply(lambda x: '+'.join(x), axis=1) |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:277: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['perturbation_covariates'] = self.adata.obs[perturbation_covariates].apply(lambda x: '+'.join(x), axis=1) |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:329: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['perturbation_covariates'] = self.adata.obs[perturbation_covariates].apply(lambda x: '+'.join(x), axis=1) |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:329: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['perturbation_covariates'] = self.adata.obs[perturbation_covariates].apply(lambda x: '+'.join(x), axis=1) |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:329: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['perturbation_covariates'] = self.adata.obs[perturbation_covariates].apply(lambda x: '+'.join(x), axis=1) |
| /home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/data_process/data.py:329: ImplicitModificationWarning: Trying to modify attribute `.obs` of view, initializing view as actual. |
| self.adata.obs['perturbation_covariates'] = self.adata.obs[perturbation_covariates].apply(lambda x: '+'.join(x), axis=1) |
| ##### loading vocab from file ##### |
| [rank3]: Traceback (most recent call last): |
| [rank3]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/script/run.py", line 279, in <module> |
| [rank3]: gene_ids = vocab.encode(list(data_manager.adata.var_names)) |
| [rank3]: ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ |
| [rank3]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/tokenizer/gene_tokenizer.py", line 67, in encode |
| [rank3]: return [self.stoi[token] for token in tokens] |
| [rank3]: ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ |
| [rank3]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/tokenizer/gene_tokenizer.py", line 67, in <listcomp> |
| [rank3]: return [self.stoi[token] for token in tokens] |
| [rank3]: ~~~~~~~~~^^^^^^^ |
| [rank3]: KeyError: 'ENSG00000239945' |
| ##### loading vocab from file ##### |
| [rank1]: Traceback (most recent call last): |
| [rank1]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/script/run.py", line 279, in <module> |
| [rank1]: gene_ids = vocab.encode(list(data_manager.adata.var_names)) |
| [rank1]: ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ |
| [rank1]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/tokenizer/gene_tokenizer.py", line 67, in encode |
| [rank1]: return [self.stoi[token] for token in tokens] |
| [rank1]: ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ |
| [rank1]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/tokenizer/gene_tokenizer.py", line 67, in <listcomp> |
| [rank1]: return [self.stoi[token] for token in tokens] |
| [rank1]: ~~~~~~~~~^^^^^^^ |
| [rank1]: KeyError: 'ENSG00000239945' |
| ##### loading vocab from file ##### |
| [rank0]: Traceback (most recent call last): |
| [rank0]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/script/run.py", line 279, in <module> |
| [rank0]: gene_ids = vocab.encode(list(data_manager.adata.var_names)) |
| [rank0]: ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ |
| [rank0]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/tokenizer/gene_tokenizer.py", line 67, in encode |
| [rank0]: return [self.stoi[token] for token in tokens] |
| [rank0]: ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ |
| [rank0]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/tokenizer/gene_tokenizer.py", line 67, in <listcomp> |
| [rank0]: return [self.stoi[token] for token in tokens] |
| [rank0]: ~~~~~~~~~^^^^^^^ |
| [rank0]: KeyError: 'ENSG00000239945' |
| ##### loading vocab from file ##### |
| [rank2]: Traceback (most recent call last): |
| [rank2]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/script/run.py", line 279, in <module> |
| [rank2]: gene_ids = vocab.encode(list(data_manager.adata.var_names)) |
| [rank2]: ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ |
| [rank2]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/tokenizer/gene_tokenizer.py", line 67, in encode |
| [rank2]: return [self.stoi[token] for token in tokens] |
| [rank2]: ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ |
| [rank2]: File "/home/hp250092/ku50001222/qian/aivc/lfj/transfer/code/ori_scDFM/src/tokenizer/gene_tokenizer.py", line 67, in <listcomp> |
| [rank2]: return [self.stoi[token] for token in tokens] |
| [rank2]: ~~~~~~~~~^^^^^^^ |
| [rank2]: KeyError: 'ENSG00000239945' |
| [rank0]:[W314 14:32:14.929098959 ProcessGroupNCCL.cpp:1479] Warning: WARNING: destroy_process_group() was not called before program exit, which can leak resources. For more info, please see https: |
| W0314 14:32:20.274000 126 torch/distributed/elastic/multiprocessing/api.py:900] Sending process 199 closing signal SIGTERM |
| W0314 14:32:20.275000 126 torch/distributed/elastic/multiprocessing/api.py:900] Sending process 200 closing signal SIGTERM |
| W0314 14:32:20.275000 126 torch/distributed/elastic/multiprocessing/api.py:900] Sending process 201 closing signal SIGTERM |
| E0314 14:32:20.492000 126 torch/distributed/elastic/multiprocessing/api.py:874] failed (exitcode: 1) local_rank: 0 (pid: 198) of binary: /home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/bin/python3.11 |
| Traceback (most recent call last): |
| File "/home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/bin/accelerate", line 6, in <module> |
| sys.exit(main()) |
| ^^^^^^ |
| File "/home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/lib64/python3.11/site-packages/accelerate/commands/accelerate_cli.py", line 50, in main |
| args.func(args) |
| File "/home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/lib64/python3.11/site-packages/accelerate/commands/launch.py", line 1190, in launch_command |
| multi_gpu_launcher(args) |
| File "/home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/lib64/python3.11/site-packages/accelerate/commands/launch.py", line 815, in multi_gpu_launcher |
| distrib_run.run(args) |
| File "/home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/lib64/python3.11/site-packages/torch/distributed/run.py", line 883, in run |
| elastic_launch( |
| File "/home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/lib64/python3.11/site-packages/torch/distributed/launcher/api.py", line 139, in __call__ |
| return launch_agent(self._config, self._entrypoint, list(args)) |
| ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ |
| File "/home/hp250092/ku50001222/qian/aivc/lfj/ori_scDFM_env/lib64/python3.11/site-packages/torch/distributed/launcher/api.py", line 270, in launch_agent |
| raise ChildFailedError( |
| torch.distributed.elastic.multiprocessing.errors.ChildFailedError: |
| ============================================================ |
| src/script/run.py FAILED |
| ------------------------------------------------------------ |
| Failures: |
| <NO_OTHER_FAILURES> |
| ------------------------------------------------------------ |
| Root Cause (first observed failure): |
| [0]: |
| time : 2026-03-14_14:32:20 |
| host : b0018 |
| rank : 0 (local_rank: 0) |
| exitcode : 1 (pid: 198) |
| error_file: <N/A> |
| traceback : To enable traceback see: https: |
| ============================================================ |
| ========================================== |
| Finished: Sat Mar 14 14:32:21 JST 2026 |
| ========================================== |
|
|
