Search found 240 matches

by jlspzw
Wed Mar 27, 2024 8:27 am
Forum: Main Forum
Topic: dont get results from DeepMSA2
Replies: 1
Views: 35

Re: dont get results from DeepMSA2

Dear user,

We have recently received a large number of jobs submitted to our server, so your job may take longer than expected. Your job is running now; we hope it can be completed in the next three days.

Best Regards
Wei Zheng
by jlspzw
Wed Mar 27, 2024 8:11 am
Forum: Main Forum
Topic: runtime error in DeepMSA 2.1
Replies: 1
Views: 20

Re: runtime error in DeepMSA 2.1

Dear yang,

Please check if the memory you requested is enough or not.

Best Regards
Wei Zheng
by jlspzw
Sun Mar 24, 2024 3:30 am
Forum: Main Forum
Topic: what do output colors indicate
Replies: 3
Views: 74

Re: what do output colors indicate

Dear Maria,

In this case, Jsmol colors the structure from N (blue) to C (red) terminus with a rainbow scale.

Best Regards
Wei Zheng
by jlspzw
Fri Mar 22, 2024 4:48 pm
Forum: Main Forum
Topic: There may be a code error in DMFold's MSA_combination.py
Replies: 1
Views: 40

Re: There may be a code error in DMFold's MSA_combination.py

Dear Gary,

Thank you for the bug reporting. Yes, it is a typo bug in the code. We have fixed this issue and released new version of DMFold and DeepMSA2 packages.

https://zhanggroup.org/DMFold/download/
https://zhanggroup.org/DeepMSA2/download/

Best Regards
Wei Zheng
by jlspzw
Fri Mar 22, 2024 4:21 pm
Forum: Main Forum
Topic: what do output colors indicate
Replies: 3
Views: 74

Re: what do output colors indicate

Hi Maria,

What server did you use?

Best Regards
Wei Zheng
by jlspzw
Fri Mar 22, 2024 4:20 pm
Forum: Main Forum
Topic: DeepMSA2 running issue
Replies: 2
Views: 256

Re: DeepMSA2 running issue

Dear user,

Your job is ready now.

Best Regards
Wei Zheng
by jlspzw
Wed Mar 20, 2024 1:51 am
Forum: Main Forum
Topic: not getting email from DMFold
Replies: 3
Views: 425

Re: not getting email from DMFold

Hi Wyzin

You can access your job by https://zhanggroup.org/DMFold/output/DMF482643047 as one example,

Best Regards
Wei Zheng
by jlspzw
Tue Mar 19, 2024 11:44 am
Forum: Main Forum
Topic: not getting email from DMFold
Replies: 3
Views: 425

Re: not getting email from DMFold

Dear user, Your job IDs are DMF482643047 and DMF349023445. BTW, we found some users' emails could not receive our email for unknown reasons (I also have this issue with one of my Gmail..., but not with other one, it should be issue on email side), so I would suggest you change to another email next ...
by jlspzw
Fri Mar 15, 2024 2:55 am
Forum: Main Forum
Topic: i tasser results not received
Replies: 1
Views: 360

Re: i tasser results not received

Dear user,

Your job is ready at https://zhanggroup.org/I-TASSER/output/S769904/; our server has been overloaded recently, so the jobs may take longer time than usual.

Thank you

Best Regards
Wei Zheng
by jlspzw
Fri Mar 15, 2024 2:53 am
Forum: Main Forum
Topic: Use DeepMSA2 output in ColabFold or AlphaFold
Replies: 1
Views: 358

Re: Use DeepMSA2 output in ColabFold or AlphaFold

Dear user, DeepMSA2 and DMFold can output paired MSA and single MSAs. you can find one example in DMFold example folder example/AF2Models/aMSA-aMSA/multi2.2-v4/seq/msas/paired.aln and example/AF2Models/aMSA-aMSA/multi2.2-v4/seq/msas/A DMFold itself accepts customs MSAs, and you can check details at ...