Failed to load Uni-Fold checkpoints

[dptech-corp]

Failed to load Uni-Fold checkpoints

[ZiyaoLi]

比较可能的是你指定的模型名错了。参考

任务 task	参数 parameters	model_name
单链预测 monomer prediction	monomer.unifold.pt	model_2_ft
多体预测 multimer prediction	multimer.unifold.pt	multimer_ft

[maxshen29]

改成model_2_ft 看起来正常了，输出了： drwxr-xr-x. 2 root root 4096 Oct 8 18:17 A -rw-r--r--. 1 root root 78458 Oct 8 18:05 A.feature.pkl.gz -rw-r--r--. 1 root root 81 Oct 8 18:17 A.timings.json -rw-r--r--. 1 root root 15597 Oct 8 18:17 A.uniprot.pkl.gz -rw-r--r--. 1 root root 1 Oct 8 17:32 chains.txt -rw-r--r--. 1 root root 170 Oct 8 18:18 model_2_ft_monomer.unifold.pt_42_3_plddt.json -rw-r--r--. 1 root root 83997 Oct 8 18:18 model_2_ft_monomer.unifold.pt_44732.pdb -rw-r--r--. 1 root root 83997 Oct 8 18:17 model_2_ft_monomer.unifold.pt_97923.pdb -rw-r--r--. 1 root root 83997 Oct 8 18:18 model_2_ft_monomer.unifold.pt_99982.pdb 发件人: Ziyao Li ***@***.***> 发送时间: 2022年10月8日 17:38 收件人: dptech-corp/Uni-Fold ***@***.***> 抄送: Max Shen ***@***.***>; Mention ***@***.***> 主题: Re: [dptech-corp/Uni-Fold] Failed to load Uni-Fold checkpoints (Issue #60) 改成model_2_ft解决了吗 — Reply to this email directly, view it on GitHub<#60 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AGYQGTMASMJKL2IKBC4KN6DWCE6GVANCNFSM6AAAAAARAFHUUU>. You are receiving this because you were mentioned.Message ID: ***@***.******@***.***>>

[ZiyaoLi]

can you please provide the url you used to download the checkpoints please.

[maxshen29]

Checkpoints是指？部署过程中感觉没有这个说明呢？ 发件人: Ziyao Li ***@***.***> 发送时间: 2022年10月8日 16:51 收件人: dptech-corp/Uni-Fold ***@***.***> 抄送: Max Shen ***@***.***>; Author ***@***.***> 主题: Re: [dptech-corp/Uni-Fold] Failed to load Uni-Fold checkpoints (Issue #60) and don't bother reply in Chinese — Reply to this email directly, view it on GitHub<#60 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AGYQGTJ3DXDRLVWNBOW4P63WCEYYTANCNFSM6AAAAAARAFHUUU>. You are receiving this because you authored the thread.Message ID: ***@***.******@***.***>>

[ZiyaoLi]

@maxshen29 指模型参数，需要从Readme里面提供的URL下载解压，见https://github.com/dptech-corp/Uni-Fold#downloading-the-pre-trained-model-parameters

[maxshen29]

我就是从这里下载的，我刚发现params 目录下多了一个文件，会不会这个文件有影响，我删除后重新执行下。 谢谢帮助，等会反馈结果。 发件人: Ziyao Li ***@***.***> 发送时间: 2022年10月8日 17:00 收件人: dptech-corp/Uni-Fold ***@***.***> 抄送: Max Shen ***@***.***>; Mention ***@***.***> 主题: Re: [dptech-corp/Uni-Fold] Failed to load Uni-Fold checkpoints (Issue #60) @maxshen29<https://github.com/maxshen29> 指模型参数，需要从Readme里面提供的URL下载解压，见https://github.com/dptech-corp/Uni-Fold#downloading-the-pre-trained-model-parameters — Reply to this email directly, view it on GitHub<#60 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AGYQGTLZI2VCGAO7XMRZ2U3WCEZXJANCNFSM6AAAAAARAFHUUU>. You are receiving this because you were mentioned.Message ID: ***@***.******@***.***>>

[maxshen29]

我检查了下，好像模型名字我写成了 model_2_af2 ： bash run_unifold.sh /data/temp/1.fasta /data/temp/output/20/ /data/data/alldata/ 2020-05-01 model_2_af2 /data/data/unifolddata/params/monomer.unifold.pt fasta 是单体

T1078 Tsp1, Trichoderma virens, 138 residues|

MAAPTPADKSMMAAVPEWTITNLKRVCNAGNTSCTWTFGVDTHLATATSCTYVVKANANASQASGGPVTCGPYTITSSWSGQFGPNNGFTTFAVTDFSKKLIVWPAYTDVQVQAGKVVSPNQSYAPANLPLEHHHHHH 发件人: Ziyao Li ***@***.***> 发送时间: 2022年10月8日 17:18 收件人: dptech-corp/Uni-Fold ***@***.***> 抄送: Max Shen ***@***.***>; Mention ***@***.***> 主题: Re: [dptech-corp/Uni-Fold] Failed to load Uni-Fold checkpoints (Issue #60) 比较可能的是你指定的模型名错了。参考 任务 task 参数 parameters model_name 单链预测 monomer prediction monomer.unifold.pt model_2_ft 多体预测 multimer prediction multimer.unifold.pt multimer_2_ft — Reply to this email directly, view it on GitHub<#60 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AGYQGTJLEVR5LKBM4GW3HA3WCE32ZANCNFSM6AAAAAARAFHUUU>. You are receiving this because you were mentioned.Message ID: ***@***.******@***.***>>

[ZiyaoLi]

改成model_2_ft解决了吗

[maxshen29]

还在执行。 还没执行完成。 发件人: Ziyao Li ***@***.***> 发送时间: 2022年10月8日 17:38 收件人: dptech-corp/Uni-Fold ***@***.***> 抄送: Max Shen ***@***.***>; Mention ***@***.***> 主题: Re: [dptech-corp/Uni-Fold] Failed to load Uni-Fold checkpoints (Issue #60) 改成model_2_ft解决了吗 — Reply to this email directly, view it on GitHub<#60 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AGYQGTMASMJKL2IKBC4KN6DWCE6GVANCNFSM6AAAAAARAFHUUU>. You are receiving this because you were mentioned.Message ID: ***@***.***>

[ZiyaoLi]

Good to see it works