Tim, Thank you for confirming that sequence files can't be read directly.
Is there a common or frequently-used way of creating a template from a sequence file *without* launching DnaPlotter? I'd like the user's first view to be the circular plot. Scott -----Original Message----- From: Tim Carver [mailto:t...@sanger.ac.uk] Sent: Monday, 21 February 2011 1:32 AM To: Scott Markel; artemis-users@sanger.ac.uk Subject: Re: [Artemis-users] launching DnaPlotter with a sequence file Hi Scott Yes it is template driven, so there is no -f option. You can manually create a template or export a template out from a DNAPlotter session. Example templates can be found in the online manual page: http://www.sanger.ac.uk/resources/software/dnaplotter/#t_3 The template then restores the track information that gets saved to the template. Regards Tim On 2/18/11 6:40 PM, "Scott Markel" <scott.mar...@accelrys.com> wrote: > I'd like to launch DnaPlotter with a sequence file name. Best I can tell by > looking at main() in uk.ac.sanger.artemis.circular.DNADraw, DnaPlotter either > reads a template file (indicated by using "-t") or launches a wizard, allowing > navigation to a sequence file or template. I'm looking for a "-f" kind of > option, where I can indicate the EMBL or GenBank file I want to display. > > An alternate, two-step approach would be to create a template from the > sequence file automatically, e.g., some sort of command-line converter (no > user interaction like browsing), and then launch with that template. > > I checked the mailing list archives but didn't see anything germane. > Apologies in advance if I'm missing something obvious. > > Scott > > Scott Markel, Ph.D. > Principal Bioinformatics Architect email: smar...@accelrys.com > Accelrys (Pipeline Pilot R&D) mobile: +1 858 205 3653 > 10188 Telesis Court, Suite 100 voice: +1 858 799 5603 > San Diego, CA 92121 fax: +1 858 799 5222 > USA web: http://www.accelrys.com > > http://www.linkedin.com/in/smarkel > Secretary, Board of Directors: > International Society for Computational Biology > Chair: ISCB Publications Committee > Associate Editor: PLoS Computational Biology > Editorial Board: Briefings in Bioinformatics > > > > > _______________________________________________ > Artemis-users mailing list > Artemis-users@sanger.ac.uk > http://lists.sanger.ac.uk/mailman/listinfo/artemis-users -- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered in England with number 2742969, whose registered office is 215 Euston Road, London, NW1 2BE. _______________________________________________ Artemis-users mailing list Artemis-users@sanger.ac.uk http://lists.sanger.ac.uk/mailman/listinfo/artemis-users
