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Recent Activity

Debbie Jacobs-Sera posted in Whole phage starterator reports

cdshaffer posted in Whole phage starterator reports

Shallee Page posted in Plaques appear on spot test, don't appear in titer

Viknesh Sivanathan posted in Plaques appear on spot test, don't appear in titer

Debbie Jacobs-Sera posted in Plaques appear on spot test, don't appear in titer

All posts created by bjconnor60

| posted 26 Jan, 2022 16:18
bjconnor60 avatar
bjconnor60
byrumc@cofc.edu
I have been running DNA Master using WINE on my Mac (High Sierra) since 2016 and have had no problems with it (including last week). When I tried to open it today, it wouldn't start at all. I downloaded Quartz and DNA Master again, but they still won't work. Has this method expired? I recently removed Flash Player from my computer. Would that cause a problem? Thanks.
Christine

I am having the same issues. Looking forward to how others have navigated it.
Posted in: Using WINE to run DNA Master on a Mac → Help with WINE
| posted 27 Feb, 2017 10:53
bjconnor60 avatar
bjconnor60
Thanks Chris. I checked on phages.db and the phams listed in your starterator report for Mattes are correct (For example, pham 25681 on the starterator report was given as 24343 on phamerator). I will check for a full update on phamerator to see if this issue is resolved.
Posted in: Starterator → phage that crash starterator
| posted 26 Feb, 2017 15:37
bjconnor60 avatar
bjconnor60
cdshaffer
Ok well it appears that flaverint does not crash my current "development" version of Starterator. So I can generate a whole phage report using it. The problem with the development version is that I have taken out much of the code that generates the summary text below the graph in anticipation of adding improved versions along the lines of the improvements to the single pham reports.

Consequently the whole phage report that comes out has all the graphics but none of the summary text. So, no counting which starts are annotated and/or conserved and no list of base locations for the various starts in the phage being analyzed, this means the online version is still better for all that info. The good news is that these whole phage reports do have the part of the PDF that you need to upload to PECAAN and PECAAN will have the links to the online versions.

Below are links to download the whole phage report for the crashing phage mentioned above as generated by the development version of starterator (for anyone interested the current development version is this branch of my person github repo).
Whole phage pdf report for Aggie using development version of Starterator

Whole phage pdf report for Flaverint using development version of Starterator

Whole phage pdf report for Mattes using development version of Starterator

Whole phage pdf report for Andies using development version of Starterator

Whole phage pdf report for Philonius using development version of Starterator

Whole phage pdf report for Aroostook using development version of Starterator

Thanks so much Chris! I have a question related to this. The pham number in this report (for Mattes) does not always match that on the phamerator map. If the students use this starterator data download for their annotation, should I be worried about these discrepancies?
Posted in: Starterator → phage that crash starterator
| posted 06 Jan, 2017 18:41
bjconnor60 avatar
bjconnor60
coomansr
Two of the four phages we had sequenced in December, Aggie and Philonius, would not run on Starterator. Both are Cluster N, and both crashed on pham 21476, which was pham 52 of 70 in Aggie and pham 52 of 72 in Philonius. I am using the new SEA 2017 VM and the database is up to date. Any suggestions?

I have had the same issue with Mattes_Draft on starterator, but crashed just after starting.
Posted in: Starterator → phage that crash starterator