Zethson
commented
1 month ago That's the same error as https://github.com/theislab/pertpy/issues/593
I'll have a look at it ASAP!
Closed kakkboy closed 1 month ago
Zethson
commented
1 month ago That's the same error as https://github.com/theislab/pertpy/issues/593
I'll have a look at it ASAP!
kakkboy
commented
1 month ago IMPORT successfully after restarting my Mac. Thank you.
Zethson
commented
1 month ago Could you please paste the whole traceback if you encounter it again?
kakkboy
commented
1 month ago OK. It seems to encounter this error again. I will paste the whole traceback immediately.
kakkboy
commented
1 month ago src=NameError Traceback (most recent call last) Cell In[4], line 3 1 import scanpy as sc 2 import scvelo as scv ----> 3 import pertpy as pt
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pertpy/init.py:20 18 from . import plot as pl 19 from . import preprocessing as pp ---> 20 from . import tools as tl
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pertpy/tools/init.py:5 3 from pertpy.tools._coda._sccoda import Sccoda 4 from pertpy.tools._coda._tasccoda import Tasccoda ----> 5 from pertpy.tools._dialogue import Dialogue 6 from pertpy.tools._differential_gene_expression import DifferentialGeneExpression 7 from pertpy.tools._distances._distance_tests import DistanceTest
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pertpy/tools/_dialogue.py:25 23 from seaborn import PairGrid 24 from sklearn.linear_model import LinearRegression ---> 25 from sparsecca import lp_pmd, multicca_permute, multicca_pmd 26 from statsmodels.sandbox.stats.multicomp import multipletests 28 if TYPE_CHECKING:
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/sparsecca/init.py:5 3 from ._cca_pmd import cca as cca_pmd 4 from ._multicca_pmd import multicca as multicca_pmd ----> 5 from ._multicca_lp import lp_pmd 6 from ._multicca_pmd_permute import multicca_permute 7 from ._pmd import pmd
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/sparsecca/_multicca_lp.py:4 2 from scipy.linalg import svd 3 from collections import defaultdict ----> 4 import pyomo.environ as pyo 6 from ._utils_pmd import scale, preprocess_datasets 7 from ._utils_pmd import soft
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/environ/init.py:86 82 pkg = _sys.modules[pname] 83 pkg.load() ---> 86 _import_packages() 88 # 89 # Expose the symbols from pyomo.core 90 # 91 from pyomo.dataportal import DataPortal
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/environ/init.py:66, in _import_packages() 64 pname = _package + '.plugins' 65 try: ---> 66 _do_import(pname) 67 except ImportError: 68 exctype, err, tb = _sys.exc_info() # BUG?
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/environ/init.py:18, in _do_import(pkg_name) 17 def _do_import(pkg_name): ---> 18 importlib.import_module(pkg_name)
File /opt/miniconda3/envs/omicverse/lib/python3.10/importlib/init.py:126, in import_module(name, package) 124 break 125 level += 1 --> 126 return _bootstrap._gcd_import(name[level:], package, level)
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/core/init.py:27 12 from pyomo.core.expr.numvalue import ( 13 value, 14 is_constant, (...) 22 polynomial_degree, 23 ) 25 from pyomo.core.expr.boolean_value import BooleanValue ---> 27 from pyomo.core.expr import ( 28 linear_expression, 29 nonlinear_expression, 30 land, 31 lor, 32 equivalent, 33 exactly, 34 atleast, 35 atmost, 36 all_different, 37 count_if, 38 implies, 39 lnot, 40 xor, 41 inequality, 42 log, 43 log10, 44 sin, 45 cos, 46 tan, 47 cosh, 48 sinh, 49 tanh, 50 asin, 51 acos, 52 atan, 53 exp, 54 sqrt, 55 asinh, 56 acosh, 57 atanh, 58 ceil, 59 floor, 60 Expr_if, 61 ) 63 from pyomo.core.expr.calculus.derivatives import differentiate 64 from pyomo.core.expr.taylor_series import taylor_series_expansion
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/core/expr/init.py:203 157 from .template_expr import ( 158 GetItemExpression, 159 Numeric_GetItemExpression, (...) 183 templatize_constraint, 184 ) 185 from .visitor import ( 186 StreamBasedExpressionVisitor, 187 SimpleExpressionVisitor, (...) 200 sizeof_expression, 201 ) --> 203 from .calculus.derivatives import differentiate 204 from .taylor_series import taylor_series_expansion
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/core/expr/calculus/derivatives.py:13 1 # 2 # 3 # Pyomo: Python Optimization Modeling Objects (...) 9 # This software is distributed under the 3-clause BSD License. 10 # 12 import enum ---> 13 from .diff_with_sympy import differentiate as sympy_diff 14 from .diff_with_pyomo import reverse_sd, reverse_ad 17 class Modes(str, enum.Enum):
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/core/expr/calculus/diff_with_sympy.py:12 1 # _ 2 # 3 # Pyomo: Python Optimization Modeling Objects (...) 9 # This software is distributed under the 3-clause BSD License. 10 # _ ---> 12 from pyomo.core.expr.sympy_tools import ( 13 sympy_available, 14 sympyify_expression, 15 sympy2pyomo_expression, 16 ) 18 # A "public" attribute indicating that differentiate() can be called 19 # ... this provides a bit of future-proofing for alternative approaches 20 # to symbolic differentiation. 21 differentiate_available = sympy_available
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/core/expr/sympy_tools.py:113 73 _pyomo_operator_map.update( 74 { 75 EXPR.SumExpression: sympy.Add, (...) 86 } 87 ) 89 _functionMap.update( 90 { 91 'exp': sympy.exp, (...) 109 } 110 ) --> 113 sympy, sympy_available = attempt_import('sympy', callback=_configure_sympy) 116 if sys.version_info[:2] < (3, 8): 118 def _prod(args):
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/common/dependencies.py:738, in attempt_import(name, error_message, only_catch_importerror, minimum_version, alt_names, callback, importer, defer_check, defer_import, deferred_submodules, catch_exceptions) 735 if deferred_submodules: 736 raise ValueError("deferred_submodules is only valid if defer_import==True") --> 738 return _perform_import( 739 name=name, 740 error_message=error_message, 741 minimum_version=minimum_version, 742 callback=callback, 743 importer=importer, 744 catch_exceptions=catch_exceptions, 745 package=inspect.currentframe().f_back.f_globals.get('name', ''), 746 )
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/common/dependencies.py:768, in _perform_import(name, error_message, minimum_version, callback, importer, catch_exceptions, package) 766 if minimum_version is None or check_min_version(module, minimum_version): 767 if callback is not None: --> 768 callback(module, True) 769 return module, True 770 else:
File /opt/miniconda3/envs/omicverse/lib/python3.10/site-packages/pyomo/core/expr/sympy_tools.py:38, in _configure_sympy(sympy, available) 32 if not available: 33 return 35 _operatorMap.update( 36 { 37 sympy.Add: sum, ---> 38 sympy.Mul: _prod, 39 sympy.Pow: lambda x: operator.pow(x), 40 sympy.exp: lambda x: EXPR.exp(x), 41 sympy.log: lambda x: EXPR.log(x), 42 sympy.sin: lambda x: EXPR.sin(x), 43 sympy.asin: lambda x: EXPR.asin(x), 44 sympy.sinh: lambda x: EXPR.sinh(x), 45 sympy.asinh: lambda x: EXPR.asinh(x), 46 sympy.cos: lambda x: EXPR.cos(x), 47 sympy.acos: lambda x: EXPR.acos(x), 48 sympy.cosh: lambda x: EXPR.cosh(x), 49 sympy.acosh: lambda x: EXPR.acosh(x), 50 sympy.tan: lambda x: EXPR.tan(x), 51 sympy.atan: lambda x: EXPR.atan(x), 52 sympy.tanh: lambda x: EXPR.tanh(x), 53 sympy.atanh: lambda x: EXPR.atanh(x), 54 sympy.ceiling: lambda x: EXPR.ceil(x), 55 sympy.floor: lambda x: EXPR.floor(x), 56 sympy.sqrt: lambda x: EXPR.sqrt(x), 57 sympy.Abs: lambda x: abs(x), 58 sympy.Derivative: _nondifferentiable, 59 sympy.Tuple: lambda x: x, 60 sympy.Or: lambda x: EXPR.lor(x), 61 sympy.And: lambda x: EXPR.land(x), 62 sympy.Implies: lambda x: EXPR.implies(x), 63 sympy.Equivalent: lambda x: EXPR.equivalents(x), 64 sympy.Not: lambda x: EXPR.lnot(x), 65 sympy.LessThan: lambda x: operator.le(x), 66 sympy.StrictLessThan: lambda x: operator.lt(x), 67 sympy.GreaterThan: lambda x: operator.ge(x), 68 sympy.StrictGreaterThan: lambda x: operator.gt(x), 69 sympy.Equality: lambda x: operator.eq(*x), 70 } 71 ) 73 _pyomo_operator_map.update( 74 { 75 EXPR.SumExpression: sympy.Add, (...) 86 } 87 ) 89 _functionMap.update( 90 { 91 'exp': sympy.exp, (...) 109 } 110 )
NameError: name '_prod' is not defined"https://github.com/theislab/pertpy/assets/47292254/e6dbc6b7-a02c-4b88-9aa3-59569e526382">
aaronwtr
commented
1 month ago Hi, running into the same issue, will paste my error log here:
Loading python/3.10.7
Loading requirement: openssl/1.1.1s
Loading cudnn/8.4.1-cuda11.6
Loading requirement: cuda/11.6.2
[^[[36m2024-05-16 18:00:24,264^[[0m][^[[34msrc.utils.utils^[[0m][^[[32mINFO^[[0m] - [rank: 0] Enforcing tags! <cfg.extras.enforce_tags=True>^[[0m
[^[[36m2024-05-16 18:00:24,270^[[0m][^[[34msrc.utils.utils^[[0m][^[[32mINFO^[[0m] - [rank: 0] Printing config tree with Rich! <cfg.extras.print_config=True>^[[0m
[^[[36m2024-05-16 18:00:24,271^[[0m][^[[34msrc.utils.rich_utils^[[0m][^[[33mWARNING^[[0m] - [rank: 0] Field 'logger' not found in config. Skipping 'logger' config printing...^[[0m
CONFIG
├── data
│ └── _target_: src.data.perturb_datamodule.PertDataModule
│ data_dir: /data/home/bty174/scBench/data/splits/perturb
│ data_name: repogle_rpe1
"output.log" 212L, 15671C 1,1 Top
Loading python/3.10.7
Loading requirement: openssl/1.1.1s
Loading cudnn/8.4.1-cuda11.6
Loading requirement: cuda/11.6.2
[^[[36m2024-05-16 18:00:24,264^[[0m][^[[34msrc.utils.utils^[[0m][^[[32mINFO^[[0m] - [rank: 0] Enforcing tags! <cfg.extras.enforce_tags=True>^[[0m
[^[[36m2024-05-16 18:00:24,270^[[0m][^[[34msrc.utils.utils^[[0m][^[[32mINFO^[[0m] - [rank: 0] Printing config tree with Rich! <cfg.extras.print_config=True>^[[0m
[^[[36m2024-05-16 18:00:24,271^[[0m][^[[34msrc.utils.rich_utils^[[0m][^[[33mWARNING^[[0m] - [rank: 0] Field 'logger' not found in config. Skipping 'logger' config printing...^[[0m
CONFIG
├── data
│ └── _target_: src.data.perturb_datamodule.PertDataModule
│ data_dir: /data/home/bty174/scBench/data/splits/perturb
│ data_name: repogle_rpe1
"output.log" 212L, 15671C 1,1 Top
Loading python/3.10.7
Loading requirement: openssl/1.1.1s
Loading cudnn/8.4.1-cuda11.6
Loading requirement: cuda/11.6.2
[^[[36m2024-05-16 18:00:24,264^[[0m][^[[34msrc.utils.utils^[[0m][^[[32mINFO^[[0m] - [rank: 0] Enforcing tags! <cfg.extras.enforce_tags=True>^[[0m
[^[[36m2024-05-16 18:00:24,270^[[0m][^[[34msrc.utils.utils^[[0m][^[[32mINFO^[[0m] - [rank: 0] Printing config tree with Rich! <cfg.extras.print_config=True>^[[0m
[^[[36m2024-05-16 18:00:24,271^[[0m][^[[34msrc.utils.rich_utils^[[0m][^[[33mWARNING^[[0m] - [rank: 0] Field 'logger' not found in config. Skipping 'logger' config printing...^[[0m
CONFIG
├── data
│ └── _target_: src.data.perturb_datamodule.PertDataModule
│ data_dir: /data/home/bty174/scBench/data/splits/perturb
│ data_name: repogle_rpe1
│ batch_size: 32
│ spectra_parameters:
│ number_repeats: 3
1,1 Top
Loading python/3.10.7
Loading requirement: openssl/1.1.1s
Loading cudnn/8.4.1-cuda11.6
Loading requirement: cuda/11.6.2
[^[[36m2024-05-16 18:00:24,264^[[0m][^[[34msrc.utils.utils^[[0m][^[[32mINFO^[[0m] - [rank: 0] Enforcing tags! <cfg.extras.enforce_tags=True>^[[0m
[^[[36m2024-05-16 18:00:24,270^[[0m][^[[34msrc.utils.utils^[[0m][^[[32mINFO^[[0m] - [rank: 0] Printing config tree with Rich! <cfg.extras.print_config=True>^[[0m
[^[[36m2024-05-16 18:00:24,271^[[0m][^[[34msrc.utils.rich_utils^[[0m][^[[33mWARNING^[[0m] - [rank: 0] Field 'logger' not found in config. Skipping 'logger' config printing...^[[0m
CONFIG
├── data
│ └── _target_: src.data.perturb_datamodule.PertDataModule
│ data_dir: /data/home/bty174/scBench/data/splits/perturb
│ data_name: repogle_rpe1
│ batch_size: 32
│ spectra_parameters:
│ number_repeats: 3
│ random_seed:
│ - 42
│ - 44
│ - 46
│ sparsification_step: 0.1
│ force_reconstruct: true
│ split: '0.00_0'
│ num_workers: 0
│ pin_memory: false
│
├── model
│ └── _target_: src.models.gears_module.GEARSLitModule
│ net:
│ _target_: src.models.reproduction.gears.gears.GEARSNetwork
│ hidden_size: 64
│ num_go_gnn_layers: 1
│ num_gene_gnn_layers: 1
│ decoder_hidden_size: 16
│ num_similar_genes_go_graph: 20
│ num_similar_genes_co_express_graph: 20
│ coexpress_threshold: 0.4
│ uncertainty: false
│ uncertainty_reg: 1
│ direction_lambda: 0.1
│ G_go: null
│ G_go_weight: null
│ G_coexpress: null
│ G_coexpress_weight: null
│ no_perturb: false
│ pert_emb_lambda: 0.2
│ num_genes: 5045
│ num_perts: 9853
│ pertmodule:
│ _target_: src.data.perturb_datamodule.PertDataModule
│ optimizer:
│ _target_: torch.optim.Adam
│ _partial_: true
│ lr: 0.001
│ weight_decay: 0.0005
│ scheduler:
│ _target_: torch.optim.lr_scheduler.StepLR
│ _partial_: true
│ step_size: 1
│ gamma: 0.5
│ model_name: gears
│ compile: false
│
├── callbacks
│ └── model_checkpoint:
│ _target_: lightning.pytorch.callbacks.ModelCheckpoint
│ dirpath: /data/home/bty174/scBench/logs/train/runs/2024-05-16_18-00-23
│ filename: best_model_at_epoch_{epoch:03d}
│ monitor: null
│ verbose: false
│ save_last: true
│ save_top_k: 1
│ mode: max
│ auto_insert_metric_name: false
│ save_weights_only: false
│ every_n_train_steps: null
│ train_time_interval: null
│ every_n_epochs: null
│ save_on_train_epoch_end: null
│ model_summary:
│ _target_: lightning.pytorch.callbacks.RichModelSummary
│ max_depth: -1
│
├── trainer
│ └── _target_: lightning.pytorch.trainer.Trainer
│ default_root_dir: /data/home/bty174/scBench/logs/train/runs/2024-05-16_1
│ min_epochs: 1
│ max_epochs: 20
│ accelerator: cpu
│ devices: 1
│ num_sanity_val_steps: 0
│ check_val_every_n_epoch: 1
│ deterministic: false
│
├── paths
│ └── root_dir: /data/home/bty174/scBench
│ data_dir: /data/home/bty174/scBench/data/splits/perturb
│ log_dir: /data/home/bty174/scBench/logs/
│ output_dir: /data/home/bty174/scBench/logs/train/runs/2024-05-16_18-00-2
│ work_dir: /data/home/bty174/scBench
│
├── extras
│ └── ignore_warnings: false
│ enforce_tags: true
│ print_config: true
│
├── task_name
│ └── train
├── tags
│ └── ['dev']
├── train
│ └── True
├── test
│ └── True
├── ckpt_path
│ └── None
└── seed
└── None
[^[[36m2024-05-16 18:00:24,402^[[0m][^[[34m__main__^[[0m][^[[32mINFO^[[0m] - [rank: 0] Instantiating datamodule <src.data.perturb_datamodule.PertDataModule>^[[0m
[^[[36m2024-05-16 18:00:32,304^[[0m][^[[34mnumexpr.utils^[[0m][^[[32mINFO^[[0m] - Note: NumExpr detected 48 cores but "NUMEXPR_MAX_THREADS" not set, so enforcing safe limit of 8.^[[0m
[^[[36m2024-05-16 18:01:12,350^[[0m][^[[34msrc.utils.utils^[[0m][^[[31mERROR^[[0m] - [rank: 0] ^[[0m
Traceback (most recent call last):
File "/data/home/bty174/.local/lib/python3.10/site-packages/hydra/_internal/utils.py", line 644, in _locate
obj = getattr(obj, part)
AttributeError: module 'src.data' has no attribute 'perturb_datamodule'
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/data/home/bty174/.local/lib/python3.10/site-packages/hydra/_internal/utils.py", line 650, in _locate
obj = import_module(mod)
File "/share/apps/centos7/python/gcc/12.1.0/3.10.7/lib/python3.10/importlib/__init__.py", line 126, in import_module
return _bootstrap._gcd_import(name[level:], package, level)
File "<frozen importlib._bootstrap>", line 1050, in _gcd_import
File "<frozen importlib._bootstrap>", line 1027, in _find_and_load
File "<frozen importlib._bootstrap>", line 1006, in _find_and_load_unlocked
File "<frozen importlib._bootstrap>", line 688, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 883, in exec_module
File "<frozen importlib._bootstrap>", line 241, in _call_with_frames_removed
File "/data/home/bty174/scBench/src/data/perturb_datamodule.py", line 4, in <module>
from pertpy import data as scpert_data
File "/data/home/bty174/.local/lib/python3.10/site-packages/pertpy/__init__.py", line 18, in <module>
from . import plot as pl
File "/data/home/bty174/.local/lib/python3.10/site-packages/pertpy/plot/__init__.py", line 2, in <module>
from pertpy.plot._coda import CodaPlot as coda
File "/data/home/bty174/.local/lib/python3.10/site-packages/pertpy/plot/_coda.py", line 13, in <module>
from pertpy.tools._coda._base_coda import CompositionalModel2
File "/data/home/bty174/.local/lib/python3.10/site-packages/pertpy/tools/__init__.py", line 5, in <module>
from pertpy.tools._dialogue import Dialogue
File "/data/home/bty174/.local/lib/python3.10/site-packages/pertpy/tools/_dialogue.py", line 25, in <module>
from sparsecca import lp_pmd, multicca_permute, multicca_pmd
File "/data/home/bty174/.local/lib/python3.10/site-packages/sparsecca/__init__.py", line 5, in <module>
from ._multicca_lp import lp_pmd
File "/data/home/bty174/.local/lib/python3.10/site-packages/sparsecca/_multicca_lp.py", line 4, in <module>
import pyomo.environ as pyo
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/environ/__init__.py", line 86, in <module>
_import_packages()
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/environ/__init__.py", line 66, in _import_packages
_do_import(pname)
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/environ/__init__.py", line 18, in _do_import
importlib.import_module(pkg_name)
File "/share/apps/centos7/python/gcc/12.1.0/3.10.7/lib/python3.10/importlib/__init__.py", line 126, in import_module
return _bootstrap._gcd_import(name[level:], package, level)
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/core/__init__.py", line 12, in <module>
from pyomo.core.expr.numvalue import (
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/core/expr/__init__.py", line 203, in <module>
from .calculus.derivatives import differentiate
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/core/expr/calculus/derivatives.py", line 13, in <module>
from .diff_with_sympy import differentiate as sympy_diff
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/core/expr/calculus/diff_with_sympy.py", line 12, in <module>
from pyomo.core.expr.sympy_tools import (
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/core/expr/sympy_tools.py", line 113, in <module>
sympy, sympy_available = attempt_import('sympy', callback=_configure_sympy)
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/common/dependencies.py", line 738, in attempt_import
return _perform_import(
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/common/dependencies.py", line 768, in _perform_import
callback(module, True)
File "/data/home/bty174/.local/lib/python3.10/site-packages/pyomo/core/expr/sympy_tools.py", line 38, in _configure_sympy
sympy.Mul: _prod,
NameError: name '_prod' is not defined
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/data/home/bty174/.local/lib/python3.10/site-packages/hydra/_internal/instantiate/_instantiate2.py", line 134, in _resolve_target
target = _locate(target)
File "/data/home/bty174/.local/lib/python3.10/site-packages/hydra/_internal/utils.py", line 658, in _locate
raise ImportError(
ImportError: Error loading 'src.data.perturb_datamodule.PertDataModule':
NameError("name '_prod' is not defined")
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/data/home/bty174/scBench/src/utils/utils.py", line 77, in wrap
metric_dict, object_dict = task_func(cfg=cfg)
File "/data/home/bty174/scBench/src/train.py", line 61, in train
datamodule: LightningDataModule = hydra.utils.instantiate(cfg.data)
File "/data/home/bty174/.local/lib/python3.10/site-packages/hydra/_internal/instantiate/_instantiate2.py", line 226, in instantiate
return instantiate_node(
File "/data/home/bty174/.local/lib/python3.10/site-packages/hydra/_internal/instantiate/_instantiate2.py", line 333, in instantiate_node
_target_ = _resolve_target(node.get(_Keys.TARGET), full_key)
File "/data/home/bty174/.local/lib/python3.10/site-packages/hydra/_internal/instantiate/_instantiate2.py", line 139, in _resolve_target
raise InstantiationException(msg) from e
hydra.errors.InstantiationException: Error locating target 'src.data.perturb_datamodule.PertDataModule', set env var HYDRA_FULL_ERROR=1 to see chained exception.
full_key: data
[^[[36m2024-05-16 18:01:12,695^[[0m][^[[34msrc.utils.utils^[[0m][^[[32mINFO^[[0m] - [rank: 0] Output dir: /data/home/bty174/scBench/logs/train/runs/2024-05-16_18-00-23^[[0m
Error executing job with overrides: []
Error locating target 'src.data.perturb_datamodule.PertDataModule', set env var HYDRA_FULL_ERROR=1 to see chained exception.
full_key: data
Set the environment variable HYDRA_FULL_ERROR=1 for a complete stack trace.
212,1 Bot
Report
Hello! I have installed pertpy on my Mac (M2) successfully. But I can not import pertpy due to a NameError(see below).
Any help would be appreciated. Thank you! Alvin
Version information
No response