Link to this post | posted 25 Mar, 2022 03:17

scaruso

Hello, There is certainly a history of that PHAM being called a holin: https://phagesdb.org/genes/Langerak_CDS_28/ TOPCONS shows it to have two TMDs and most of the internal tools agree, with the ones disagreeing showing one TMD. https://topcons.cbr.su.se/pred/result/rst_3pzb2qao/ HHPred doesn't show the TMDs, as you mention, but has a perfect PFAM hit to the holin: https://toolkit.tuebingen.mpg.de/jobs/Lang. PFAM isn't the best, but it's a full length hit. And it's been called in lots and lots of places: https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&RID=3UCM7VF0013. On one of ours, I would feel pretty comfortable with it. I hope that's helpful, Steve

Link to this post | posted 22 Mar, 2022 15:01
scaruso	Thank you! Steve

Link to this post | posted 21 Mar, 2022 14:14
scaruso	Good morning all, Has anyone noticed an issue with PECAAN running BLAST over the last week? I have checked the jobs table, and they haven't been changing. Is it down? Steve

Link to this post | posted 01 Feb, 2022 22:59

scaruso

DanRussell Hi Steve, There's a forum thread that talks about this error, but apparently the link to the fix isn't working anymore. https://seaphages.org/forums/topic/4436/ But this should be basically the same thing. Maybe try installing one of the Visual C++ packages here and giving it a shot? https://docs.microsoft.com/en-US/cpp/windows/latest-supported-vc-redist?view=msvc-170 –Dan Any chance you know how to deal with the error messages: An error occurred while attempting to initialize the Borland Database Engine (error #2108 ) and Queries table corrupt; reload from DNA Master FTP site? I have agreed to the latter. Tried uninstalling, reinstalling, reinitializing the database, etc. But DNAM simply doesn't work on the 'puter anymore. Steve Edited 01 Feb, 2022 22:59

Link to this post | posted 01 Feb, 2022 22:00
scaruso	Thank you, I will try it right away. Steve

Link to this post | posted 01 Feb, 2022 21:31

scaruso

Hello all, I have tried installing DNAM on a new Windows 11 machine in my teaching lab since it won't run on my old office computer anymore, and it installed. Once all the setting were updated, I tried BLASTING a gene and got: Could not load SSL library. This is very troubling since we start using DNAM in class on lab computers tomorrow. Any ideas from anyone? I am at a loss to get DNAM to work at UMBC. Steve

Link to this post | posted 04 Oct, 2021 20:02

scaruso

I have been unable to use DNA Master for the last few weeks. It may or may not be coincident with a Windows 10 update, I can't be sure, I'm afraid. But I am getting a "Error occurred while attempting to initialize the Borland database" message alternating with "Query table is corrupt." I have tried rebuilding the database and reinstalling DNAM, but same issue. Has anyone else had this issue? I am at a loss. I also need to provide the program to our DoIT soon for the spring, but I don't know what to give them, now, since the link from PITT is often non-functional. I would appreciate any guidance anyone can provide. Steve

Link to this post | posted 20 Sep, 2021 18:21
scaruso	Hello all, Any new news? DNAM suddenly failed on my machine. No changes made, just the databases up and quit. Can't re-initialize. I'm a little nervous for the Spring. Do we have a version to give to my DoIT? Steve

Link to this post | posted 30 Jun, 2021 19:59
scaruso	I am grateful. Steve

Link to this post | posted 30 Jun, 2021 19:46
scaruso	Can I ask one more dumb question, though? I have looked through all the old emails and posts on here and I can only find links to the 2017 VM. No rush, but when you have a moment, could someone post a link the 2020 VM? I am sure it's in some old email I saved. But I can't find it. Thanks! Steve