DeepGraphLearning/torchdrug

Issues

• Incompatible with huggingface transformers?

  #248 opened 9 months ago by hxu105
  2

• Hello, I encountered the following error when running the code with torchdrug. I have been reporting this error for a long time after debugging. Could you help me, please?

  #257 opened 3 months ago by lh5533223
  1

• ATen/SparseTensorUtils.h: No such file or directory

  #258 opened 2 months ago by EauDeData
  1

• FAILED: spmm.cuda.o FAILED: rspmm.cuda.o

  #216 opened a year ago by boxorange
  3

• Forward loss calculate in the NodePropertyPrediction

  #256 opened 3 months ago by fourier20laplace
  0

• Has this project stopped being maintained?

  #255 opened 4 months ago by LYZ02
  0

• [Solved: share of training data kept in task/KnowledgeGraphCompletion/preprocess]

  #252 opened 6 months ago by jnaeg
  0

• Quick Start problem. RuntimeError: Error building extension 'torch_ext'

  #249 opened 8 months ago by SatorioK
  0

• atom_feature="symbol" is only available for class GCPNGeneration() ?

  #240 opened a year ago by teltim
  1

• Segmentation fault

  #243 opened a year ago by t1nglanwang
  1

• ESM, max length issues using ESM-gearnet-serial model

  #247 opened 10 months ago by gkwlgns323
  2

• subprocess.CalledProcessError: Command '['c++', '-v']' returned non-zero exit status 1.

  #245 opened a year ago by Filco306
  1

• Impossible to reproduce pretrain tutorial

  #246 opened 10 months ago by rnsantos-sanofi
  0

• Reading own dataset??

  #223 opened a year ago by amarye
  1

• torchdrug.patch.py breaks use of ConcatDataset

  #237 opened a year ago by bbrier
  1

• Passing CIF file directly into TorchDrug Protein?

  #231 opened a year ago by gtamer2
  0

• issues with reproducing pLogP benchmark for GPCN

  #244 opened a year ago by chrisvdwerf
  0

• TypeError during validation

  #242 opened a year ago by Joey-Xue
  0

• torch_ext.so cannot be found error on Macbook macOS

  #229 opened a year ago by GZ82
  2

• class Molecule(Graph), definition of "self.atom2valence"

  #241 opened a year ago by teltim
  0

• graph with global features, and mydataset

  #239 opened a year ago by teltim
  0

• [Note] Dead lock when running `layers.GraphIsomorphismConv` (issue located in `sparse_coo_tensor`)

  #238 opened a year ago by jasperhyp
  0

• Statistics and data splitting scheme on PPI datasets

  #234 opened a year ago by sduzxj
  2

• Small issue in atom2valence dictionary iteration in `Molecule.is_valid`

  #236 opened a year ago by UmarZein
  0

• Nan error while using GraphAF to optimize QED

  #235 opened a year ago by LuckyLittleMonster
  0

• example for tasks.MultipleBinaryClassification

  #233 opened a year ago by GZ82
  2

• Issue converting PDB file to torchdrug.data.PackedProtein / Protein

  #230 opened a year ago by gtamer2
  1

• To load huge dataset, and train the model

  #232 opened a year ago by teltim
  0

• torch.nn.Module Memory Address Changes After Importing torchdrug

  #227 opened a year ago by benyaminjami
  0

• Read-only file system: for importing models

  #226 opened a year ago by mandana86
  0

• Adding interactive examples

  #225 opened a year ago by edublancas
  0

• Question about the swissprot data size used in alphafolddb.py

  #224 opened a year ago by shawn-hsyu
  0

• A potencial solution to enable hardware acceleration on torchdrug

  #222 opened a year ago by ccorbi
  0

• -1 in ESM.mapping

  #221 opened a year ago by zhiqiangzhongddu
  0

• Why treat water in protein as glycine

  #202 opened 2 years ago by YanjingLiLi
  2

• Training GCPN on a custom dataset

  #219 opened a year ago by akshat998
  0

• Selection of features for atoms, bonds, and residues

  #218 opened a year ago by mancaldel
  0

• How to handle multiple chains in protein structure

  #214 opened a year ago by YanjingLiLi
  1

• How to modify the dataset when can't construct protein graph from pdb?

  #203 opened 2 years ago by Chris-Tang6
  4

• CPU usage too hight, up to 3000%

  #209 opened a year ago by Chris-Tang6
  2

• Identifying ranked links predicted from knowledge graph reasoning

  #213 opened a year ago by sb930
  0

• Dependency issues in requirements.txt

  #204 opened 2 years ago by MonkeyDLuffy99
  1

• bond_type mapping question

  #212 opened a year ago by kevintyang
  2

• assertion error? / Runtime error

  #211 opened a year ago by SanazKaz
  0

• Torchdrug on Apple Silicon?

  #210 opened a year ago by SanazKaz
  2

• Is there support for extracting fine-tuned model's embeddings?

  #208 opened 2 years ago by zhiqiangzhongddu
  0

• SubcellularLocalization Dataset error

  #206 opened 2 years ago by chrismun
  0

• Question about self.task

  #205 opened 2 years ago by YanjingLiLi
  1

• Where are optimizers registered?

  #201 opened 2 years ago by yunxiaoliCB
  2

• Shape invalid in GearNet, GeometricRelationalGraphConv.message_and_aggregate()

  #200 opened 2 years ago by Chris-Tang6
  1