Posts Tagged ‘Gigapan’

our first nano GigaPan

Wednesday, March 9th, 2011

We’ve been quietly portaging our drawer images to the GigaPan website over these last few months, and more than 1,100 are now available for perusal and annotation. We’ve also partnered with other taxonomists and a library scientist to re-purpose many of the images and to more rigorously explore their utility. More on that later. Right now I want to highlight our first nano-scale GigaPan(!):

This little ensign wasp (Hymenptera: Evaniidae: Acanthinevania sp.), collected in western Victoria, is not quite 1 cm long … and yet it took almost 2,200 individual images to create this GigaPan. It was several days work (thanks István!!!) at the compound ’scope, with numerous sets of stacked micrographs required to account for all the three-dimensionality exhibited by this specimen. The resolution is excellent—one can even distinguish the comb-like structure of the probasitarsal notch (part of the antenna cleaner)! See below.

Was this micrograph worth the effort? Yes. As a resource for teaching people about Hymenoptera, or at least Evaniidae, it’s beautiful. We also employed this GigaPan, with the site’s built-in annotation and visualization tools, as part of an outreach / learning exercise for the Hymenoptera Anatomy Ontology (HAO) project. It worked like a charm. And behind the curtain we are setting this image up as an object for formal SVG overlay annotations to illustrate the HAO and as a specimen for redescription using new methods. More on that very soon.

Are we ready to do this for lots of specimens? Not quite. It was extraordinarily labor-intensive. We will likely train one of our technicians to create these kinds of GigaPans and then do several more hymenopterans (across the phylogeny of the order) for the HAO’s glossary website. In the meantime we’d love to hear your comments. We’ll even take requests! What insect(s) would you like to see imaged at high resolution?

In the meantime you should take a peak at Gene Cooper’s GigaPan feed, as well as the Nano GigaPan blog for other images along the same vein. Cool stuff!

Our 1000th GigaPan!

Monday, January 24th, 2011

I almost missed it, but our 1000th GigaPan drawer image went up late last week! Check it out (link to original):

It ended up being a drawer of shore bug specimens (Hemiptera: Saldidae), which is pretty cool. Maybe we should have had some sort of GigaPan lottery – guess the taxon that is found in drawer 1000! You can find these insects pretty easily if you cruise along the edges of ponds and rivers and look at the sand. They’re typically predators of other arthropods one finds associated with water. BugGuide has a pretty decent set of images of these bugs in situ.

ENT 502 collection exemplars

Tuesday, January 11th, 2011

We’re in the process of imaging some of the student collections from last semester’s iteration of ENT 502. This is the foundational entomology class for graduate students, Insect Biodiversity and Evolution, which requires a fairly substantial collection as part of the grade. Students have written multiple times in their evaluations how useful it’d be to see collections from previous classes: the ranges of specimen numbers, morphospecies numbers, curation levels, labeling schemes, etc. What does a great collection look like? What are the common problems they should avoid?

The problem is … I usually end up breaking down the collections at the end of the semester, consolidating taxa and transferring worthy specimens (which is most of them!) into the research and teaching collections. I.e., I never seem to remember that I am supposed to save a good collection for future students to explore! GigaPan, we’ve realized recently, is a great solution to this dilemma. Here’s the first collection we imaged that didn’t have major stitching errors (or go directly to the drawer and vials):



This collection consisted of 315 insect specimens, all of which were databased (i.e., barcoded and digitized for taxon and collecting event) and many of which were determined below the family level (which is the minimum level required; each specimen gets a determination label). The vials were nicely topped off with ethanol, something many students forget to do. Overall I’d say this collection is a great model for future students to follow. More excellent collections coming up soon!

Report from the Gigapixel Conference

Monday, November 15th, 2010

Matt Bertone and I just returned from the Fine International Conference on Gigapixel Imaging for Science at Carnegie Mellon University, where we presented a poster (Bertone & Deans 2010) and proceedings paper (Bertone & Deans 2010) about our drawer imaging project using this new technology. We also attended a juried gallery opening at the Carnegie Museum of Natural History that featured one of our images (see it in vivo on this GigaPan image) and all we can say is W-O-W! It was definitely an inspirational event, with keynote speakers from NASA, National Geographic, and Google. We’re especially excited about the new functionality coming to the GigaPan.org site (still looking for more sophisticated annotation tools, though).

We’ve published 886 drawer images so far and are on track to complete all 2,700 drawers in the collection by spring, 2011. Check back here or the GigaPan site for more updates!

Gallery Show
Our print on exhibit at the Carnegie Museum of Natural History.
Poster SessionFielding questions about our poster.

Some of our experiences from Pittsburgh:

Fries!“Small” fries at Essie’s Original Hot Dog shop (aka The Original Hot Dog Shop, The O or The Dirty O).
Mr. T-rex
T. rex Mr. Rogers.

GigaPan update…

Thursday, March 18th, 2010

In the last couple weeks, we have been working on getting our museum GigaPan imaging going (with some success). First, we integrated an AC adapter into the unit, so that we can run it without having to change batteries all the time. For those interested, we developed an instructional guide for achieving this (with initial help from Randy Sargent at NASA). Here’s the result:


The new power supply jack on the GigaPan.


Power supply plugged in.

Once we had a constantly-powered GigaPan, I went to work imaging our Fulgoridae drawers. The results can be seen on the GigaPan website, with an example below. Things seem to be working well, and I hope that the whole process goes smoothly when we have the final work-flow.

All of this is great, but the real reason I started this blog post was to highlight something interesting I saw being done with our previous Cicadellidae drawer. It seems a fellow biodiversity researcher (Alex Smith, aka biodiversity22), noticed a locality label on one of the leaf hoppers in that drawer that matched an area in Costa Rica that he had already Gigapanned (at least that’s what I gather – maybe the GigaPan was taken after the fact?)! This means that we now have a visual representation of the type of habitat where some of the insects in our museum were collected. All we have to do now is get GigaPans for all of our localities in the collection! Shouldn’t be hard…

Gigapan: Take 2

Friday, January 15th, 2010

After some time spent trying to get an AC adapter incorporated into the Gigapan (which we have abandoned, for now), we decided to purchase and assemble a more-or-less permanent setup. To get some advice and equipment, I went to Peace Camera in Raleigh.

First: the camera. We decided to use a non-SLR for the system. Our reasoning was based on weight of the camera and ease of use; some SLRs do work on the Gigapan, but the way we have it oriented (facing the ground rather than the horizon) seems to strain the robot. The guys at Peace Camera suggested we use the Canon PowerShot G11, which they considered one of the best non-SLR cameras. Thus, the camera was chosen…

Next: where to mount. To mount the Gigapan and camera, we bought a used copy stand. The stand came with attached lights (akin to the reptile lights I’ve bought in the past), but we wanted some good natural lighting for the process, so we detached the old lights leaving a simple stand and adjustable mount. Pretty much straight forward…

Finally: lighting. The photography guys suggested the Interfit Photographic INT217 Super Cool Lite 9 Twin Head Kit. These lights house 9 fluorescent lights each (for continuous use) and produce 5200K light, similar to daylight. The lights were huge and came with stands and diffusers, but for the price seem great.

With the components in place, our setup looks like this (for now…):



The setup: lights, camera (not shown), Giga!


More of the setup.

The result (though we’re still optimizing the workflow!) is dramatic when compared to our test image. All-in-all the final picture (totaling 190 megapixels) was composed of 35 stitched photos and took about 1 minute to shoot and 40 minutes to process. While the processing and optimization are concerns of ours (2500 drawers x 40 minutes = 2.5 months of continuous stitching!!!), we are very happy with the quality of the final Gigapan and are optimistic that this endeavor will prove fruitful. Stay tuned for future updates!