Notice: In order to edit this ticket you need to be either: a Product Owner, The owner or the reporter of the ticket, or, in case of a Task not yet assigned, a team_member"

Task #12913 (closed)

Opened 5 years ago

Closed 5 years ago

DeltaVision to include Structured Illumination files

Reported by: wmoore Owned by: mlinkert
Priority: critical Milestone: 5.1.3
Component: General Version: n.a.
Keywords: n.a. Cc: kai.schleicher@…
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.

Description

From ome-devel e-mails (5th June 2015)...

Is it possible to automatically attach a *.txt file of the same name as the image file to the image during upload?

The files are beeing created on a DeltaVision? OMX Blaze in SI mode for super resolution using the OMX software on a windows machine.

Using Softworx, the super-resolution image is reconstructed from the raw data and then the different channels are aligned.

With this procedure, I end up with several files, for example:

20150601_Beadswell4_4ch_1516_SI_001.dv
20150601_Beadswell4_4ch_1516_SI_001.log
20150601_Beadswell4_4ch_1516_SI_001_SIR.dv
20150601_Beadswell4_4ch_1516_SI_001_SIR_ALX.dv
20150601_Beadswell4_4ch_1516_SI_001_SIR_ALX_log.txt
20150601_Beadswell4_4ch_1516_SI_001_SIR_log.txt
20150601_Beadswell4_4ch_1516_SI_001_task.sh.joblog

here, SIR = reconstructed image, and
ALX= camera alignment done

Change History (3)

comment:1 Changed 5 years ago by wmoore

  • Owner set to mlinkert

comment:2 Changed 5 years ago by wmoore

  • Cc kai.schleicher@… added

comment:3 Changed 5 years ago by mlinkert

  • Resolution set to worksforme
  • Status changed from new to closed

This works as expected for me with current merge builds. I used test_images_good/dv/mt1_R3D_D3D* to test; the .dv file was copied to each of the 3 .dv names listed above, and the _log.txt file was copied to each of the .log and _log.txt files above (so 3 pairs total).

'showinf' on each of the .dv files results in 2 used files - the .dv and the corresponding .log or _log.txt. The extensions mentioned in http://lists.openmicroscopy.org.uk/pipermail/ome-devel/2015-June/003332.html are only relevant for picking a file to import/initialize; what actually associates log files with a .dv is https://github.com/openmicroscopy/bioformats/blob/develop/components/formats-gpl/src/loci/formats/in/DeltavisionReader.java#L927.

Will, feel free to re-open if you were able to reproduce this, or if I'm missing something.

Note: See TracTickets for help on using tickets. You may also have a look at Agilo extensions to the ticket.

1.3.13-PRO © 2008-2011 Agilo Software all rights reserved (this page was served in: 0.90930 sec.)

We're Hiring!