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Issues list

AssertionError: if using tf gamma, only sequence length of 1536 allowed for now
#40 by jerome-f was closed Mar 30, 2024
Gradient checkpoint
#33 by fransilvionGenomica was closed Nov 3, 2023
2
Hard coded input sequence length to the transformer blocks with using use_tf_gamma = True
#32 by zhhhhahahaha was closed Dec 15, 2023
14
Rounding errors in the positional encodings
#31 by johahi was closed Sep 28, 2023
6
Would using FlashAttention(2) help?
#30 by jmschrei was closed Aug 23, 2023
4
Fail to read .bed file
#29 by kchl5 was closed Aug 16, 2023
Using transformers[torch] to limit dependencies
#27 by gokceneraslan was closed Dec 15, 2023
1
GenomeIntervalDataset problems
#26 by tcztzy was closed May 14, 2023
1
Reverse Complement Fails when return_seq_indices=True
#25 by Vejni was closed Apr 5, 2023
3
Initializing AttentionPool weights with 2 * Identity matrix, again!
#22 by dohlee was closed Feb 12, 2023
3
Initializing AttentionPool weights with 2 * Identity matrix.
#21 by dohlee was closed Feb 11, 2023
1
Error in fine-tuning
#20 by joonan30 was closed Feb 9, 2023
3
Minor typo in data.py
#19 by icdh99 was closed Jan 31, 2023
2
Distribution of embedding values
#18 by sofroniewn was closed Feb 21, 2023
5
rounding errors fixed?
#17 by mepster was closed Feb 21, 2023
3
Fine-tuning without freezing transformer parameter leads to poor performance
#16 by Zehui127 was closed Feb 21, 2023
27
Using EleutherAI/enformer-official-rough PyTorch implementation to just get human output head
#15 by aaronwtr was closed Dec 23, 2022
4
Minor potential typo in FastaInterval class
#14 by sofroniewn was closed Dec 22, 2022
2
enformer TF pretrained weights
#11 by naumanjaved was closed Sep 6, 2022
1
AttentionPool bug?
#10 by cmlakhan was closed Aug 25, 2022
1
example data files
#7 by yingyuan830 was closed Jul 3, 2022
3
Why do we need Residual here while we have residual connection inside conv block
#6 by inspirit was closed Jun 12, 2022
2
How to load the pre-trained Enfromer model?
#3 by yzJiang9 was closed Feb 23, 2022
2
ProTip! Adding no:label will show everything without a label.