search

SEA-PHAGES / starterator

Released Stable version of Starterator for SEA phages; Note does not work with current version of phamerator database! For version compatible with current phamerator database, see this repo: cdshaffer/starterator
0 stars 2 forks source link

DNA master udpate to Genome profile breaks starterator #42

Closed cdshaffer closed 3 years ago

cdshaffer commented 3 years ago

I recently discovered that DNA Master (version 5.23.6 updated 8 Nov 2020) is adding in an extra column into the basic Genome Profile called "Arm." It shows up in my files as Column E, in between Strand and Feature_Start. If you are trying to run Starterator 1.2 on a Whole Unphamerated Phage for QC purposes and do not delete this "Arm" column from the .csv Genome Profile, running Starterator 1.2 on the SEA VM fails and dumps out a blank report. Deleting the "Arm" column from the Genome Profile will enable you to successfully run a Starterator 1.2 report on a Whole Unphamerated Phage.

I do not see a checkbox option on DNA Master to remove the "Arm" column from the Genome Profile output, so you will have to manually edit the csv output file.

cdshaffer commented 3 years ago

This has been fixed in SchemeTen branch, Note that this version of Starterator will now no longer work with the older versions of the profile created by older out of date DNA Master. Be sure to use the most recent version of DNA Master to be compatible with SchemeTen