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Recent Activity
Debbie Jacobs-Sera posted in Critical Update: Installing New Copies of DNA Master or Updating Old Versions of DNA Master prior to Version 2701
Viknesh Sivanathan posted in Top Agar contamination
Debbie Jacobs-Sera posted in Phage Enzyme Tools - PET2.0 - Down?
All posts created by debbie
Link to this post | posted 01 Nov, 2021 01:06 | |
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Sorry for the delay in this response. I think that the hits to levanase and hydrolase suggest that this could be a minor tail protein. It is not in a canonical location so this gets a bit tricky to call. Howver, becsuse it is very similar to BENtherdunthat_gp35 that is in a more canonical space makes me think that it could indeed be a minor tail. |
Link to this post | posted 14 Oct, 2021 20:12 | |
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Amanda, HI! Sorry for the delay in my response too! Claire and the PECAAN folks purposely made the PECAAN output meet the QC requirements for each gene of an annotation. So i don't think that any modifications are needed from the PECAAN output. Use the cover sheet to describe what you have done and all should work out. debbie |
Posted in: Notes and Final Files → Question about notes template
Link to this post | posted 17 Sep, 2021 16:24 | |
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Hi all, My last posts were misguided. It was the license problem. GeneMark is back on line! debbie |
Posted in: DNA Master → Auto-annotation fix for fall 2017 and later
Link to this post | posted 16 Sep, 2021 21:12 | |
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I just talked to Christian and he suggested the simplest explanation is the Preference Settings in the Secure Connections panel are not set properly. See the attached picture for what they should look like. Going forward, would you let me know if you still have problems what DNA master build number you are using. (The latest build that i have is 2704.) Thanks! |
Posted in: DNA Master → Auto-annotation fix for fall 2017 and later
Link to this post | posted 16 Sep, 2021 21:04 | |
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Good info. I have no idea if this will have any impact. The latest 'fix' is about active and passive FTP. Make sure that in your preferences -> Internet setting ->Home Site that you match the setting that I have. (This is the only preference i have modified lately.) And as another data point, I auto-annotated a new to me genome this morning and DID get GeneMark data in my auto-annotation. debbie |
Posted in: DNA Master → Auto-annotation fix for fall 2017 and later
Link to this post | posted 16 Sep, 2021 00:25 | |
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Kathleen, Here is the next thing that I would like you to check/try. Check out your auto-annotation choices. Do you have both analyses checked as int he attached photo? Thanks, debbie |
Posted in: DNA Master → Auto-annotation fix for fall 2017 and later
Link to this post | posted 15 Sep, 2021 21:34 | |
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Hi Kathleen, Would you try again? I just auto-annotated a genome and got GeneMark results. The license to use GeneMark's server seems to be dependent on use, so it is not easy to predict when we have to update it. It could have just been updated after you auto-annotated. If that is true then you will get GeneMark results when you repeat. If you don't get GeneMark results when you repeat, I am not sure what the problem is and will investigate further. Keep me posted, debbie |
Posted in: DNA Master → Auto-annotation fix for fall 2017 and later
Link to this post | posted 31 Aug, 2021 02:11 | |
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Hi all. Kristen is correct. We are aware of this issue and are working on it. debbie |
Posted in: DNA Master → DNA Master Issue
Link to this post | posted 20 Aug, 2021 15:44 | |
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Yes. I think so. |
Posted in: DNA Master → DNA Master Issue
Link to this post | posted 20 Aug, 2021 14:56 | |
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Hi! I think that this is the issue: If the 'Use PBI server…" is not on your screen, you still need to update DNA Master to continue. Be sure to update as an administer. debbie |
Posted in: DNA Master → DNA Master Issue