Black-out poems!

My friend, Alexandra Naughton, recently created an E-book of poetry created by taking a black marker to Billy Corgan’s book of poetry. It’s a technique that’s sometimes called black-out or deletion poetry, and I thought it was a really cool idea.

I was inspired to give it a try, and so I went looking for material. I figured out that there are some emails and messages that we send and receive that have another message to show, and so I started collecting those emails .

If you’ve ever received one of those emails that make you say, “wow, this is crazy. I need to show somebody.”, then send it to me at joe@totallyshould.com ! If you’ve been broken up with over email, had a crazy ex-landlord, a school project partner with insane excuses, send them my way!

Have a happy new year!

Picking one day to make resolutions for the new year is not a good idea. We can do this any day of the year, and indeed we should resolve to make change whenever we recognize that it’s a good idea. What’s special about today is that we can take it as a reminder to look back, to look forward, and see our lives in a different scale of time than what we do on the day-to-day. What have you been up to for the last 365 days? Has it been a good year, are you making the most of your limited time?

I’m thinking about how it’s gone as I look toward the future. This year I’ve found a job and an apartment of my own. I’ve met many wonderful people (including Kaitlyn!) and reconnected with old friends. I’ve traveled, practiced old hobbies, and tried new things. I want to thank all of you for being a part of this, and I hope you all have a wonderful new year. Go out and make 2014 the best year yet!

And don’t forget to take pictures!
http://flic.kr/s/aHsjPRDsUQ

Lasers, sensors, cameras! A 3D scanning backpack for UC Berkeley (part 1)

About a year ago I was contacted by a professor at UC Berkeley who had found my resume online. Her team had produced a backpack device that was capable of collecting data to generate 3D models of internal spaces, and she needed a new backpack designed that would be smaller and lighter. I took this on as a part time project while I was looking for full time work, and it was a fun challenge. I’ve talked about this project in the past, but they finally went live with the backpack so I thought it was time for a post.

You can read all about Professor Zakhor’s original backpack on the EECS website. This is what they had before I arrived. It weighs over 70 pounds, is built to hold an changing array of sensors and cameras, and I understand that it went through many iterations and changes as they developed the software techniques that could turn the data into usable 3D representations of internal spaces. My job was to provide a compact, lightweight platform that provided stable and well defined positions for a suite of sensors. Many of the sensors needed to be adjusted to different angles to accommodate users of different heights, or movement through different environments.

The sensors on the version of the backpack that I designed include:

That’s it for now, but it’s possible to attach other pieces as needed. I sourced an embedded PC that seems to have the processing power to shove all the data from those sensors into some SSDs, and the entire collection of parts is powered by several lithium ion batteries. The batteries are an off the shelf solution, and have a good amount of intelligence and safety built in. We run the batteries in series to create a voltage from about 18 to 60 volts, and a DC-DC converter regulates this to a main system voltage of 24 volts.

Here’s a creepy render of the system on a mannequin.

render

Check back soon, and I should have an explanation of what each of the sensors is doing, and how I designed this thing!

 

Bike tour 2013, the rest of it!

One of the big differences between doing a solo bike tour and riding with friends is that when you’re not riding it seems like a lot more fun to socialize with everybody than it is to isolate yourself with a cell phone writing blog posts. Especially with a truck to move us along and coordinated meals, there was a lot less time to just sit around blogging.

Of course that doesn’t stop me from taking pictures along the way, so here are some of those!

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This is one of the bridges that we crossed, and if I remember right we were able to zoom over it quite quickly.

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As always, the California coast is gorgeous.

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Breathtaking.

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We had to stay lotioned to avoid burns.

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I thought this irrigation pond was cool.

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We had to cut through a field full of vegetables, and some rubber bands had spilled out onto the ground.

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This is what it looked like for a while. I was glad to have far tires.

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This is how I imagine touring across the Midwest looks.

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Hey, free rubber bands.

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Comically large taco salad.

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We need all this food for energy.

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This was out only link to the outside world in Big Sur. Oh, and the wifi once we got the password.

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Hello!

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Some people have no respect!

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The aftermath of not enough lotion. 90% of that was one morning before lunch.

That’s all for now! We camped three nights and did around 150ish miles, and I think I learned a lot about touring with friends. It’s fun in a different way, but still a blast!

Bike tour 2013, day one

We got up about 7:30, had some bagel sandwiches and coffee, and set out on our adventure. Kaitlyn was taking care of a few final details so we went her this one:

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We had to go to Target to get Rebecca outfitted with a complete weekend worth of clothing, then we had to stop at a bike shop for a map since I lost my Adventure Cycling map in my move, and we didnt make it to Half Moon Bay until it was time for a late lunch. We didn’t get our tires on the ground until about 3 in the afternoon, and before we made it even a block I had a flat tire. Boo!

Bike tour 2013, day zero!

So we’ve put together a summer bike tour with friends! It’s not just me this time. My girlfriend Kaitlyn, my friend Andrew from college, and his girlfriend Rebecca have rented a van and to head south down the coast from Half Moon Bay.

This trip was the result of about nine months of emails and people backing out, or trying to get in at the last minute, but Andy and Rebecca came out on Friday afternoon. I picked up some rental bikes for them, and we all met at Umami burger for dinner.

Food was good, but then about ten minutes into our meal we got a phone call that our van had been broken into. Somebody had broken the passenger side window and grabbed Rebecca’s backpack. She lost her phone, all her clothes, and two pairs of glasses. Obviously this was a bad start to the trip.

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We called Enterprise, and traded the van for the only thing they had left (an extended cab pickup) and brought all of the bikes and gear into my tiny studio apartment for the night. Fortunately, everyone stayed fairly calm and spirits were not crushed.

Snap away!

I see that I haven’t posted any new projects since February, but I’ve definitely been keeping busy!

Just before my last photo post I flew up to Washington and did some photography for my friend Molly, shooting her bikini project.  Check it out!

Just before that I shot Oakland Nights… Live! on a BART train, and then right after that I flew to Wisconsin for Thanksgiving with my family. In February I scouted out a “post apocalyptic folk drone-core doom” band by the name of Feral Booty, in March I shot a power soccer match in Berkeley, and also Oakland Night… Live! in their new location!

All of these photo sessions felt like a pretty steady progression from what I’ve been up to (though flying to Washington for a project was special and out of the norm!), but things have recently started to intensify even more. In late March I got a text about a super secret event in an undisclosed location, and boy was it something! Check it out- and if you have a Flickr account and your settings adjusted for it, you’ll even see some ‘adult’ content. Some folks had taken over an old disused movie theater, and the show on stage was very “anything goes”. Very exciting!

I had one more ONL show since then, but then this week something kind of special happened. I was walking home from work, taking a different route than usual when I saw a car across from the post office that had been absolutely covered in bird poop. A family of herons had made its home up there, and somebody parked under them for a few weeks. I took an Instagram picture and got a good reaction from my friends and family:

shitty car

It was cool, but I felt like I could do better if I had the right light and a better camera. I looked up this website to see what direction light would be coming from at different times of the day (sollumis.com), and saw that walking there before work would make the light come in from the front of the car, the side by the sidewalk, so that was maybe as good as it was going to get- specifically really darned early so that light would have some good directionality and color. I decided that since the car could get towed any time there was no time like the present. I said, “I totally should!!” and set my alarm. It was really hard to get out of bed at dawn, but then I reminded myself, I TOTALLY SHOULD TAKE THAT PICTURE!!!

It didn’t really make me less tired, but it was enough to get me out the door.

I was borrowing a super wide angle lens from UC Berkeley, and so I brought that along and took this picture, which I posted on reddit.com. When I went to bed a couple of dozen people had upvoted it, and there was no count on how many had seen it. When I woke up it had made the front page, and over 200,000 people had seen it. Now, in less than a day nearly three quarters of a million people have seen my picture!! This is the most exposure, by far, that any of my images has ever had, and I’m totally psyched.

many views

A new joystick

Here’s a quick update of a project I was able to do pretty quickly- one of the BORP players was having trouble reaching her joystick properly to continue playing at a high level, but there weren’t any off-the-shelf products that would allow that to happen, and most of the customizable systems that are available for wheelchairs cost hundreds of dollars, and would probably require a little custom fabrication to even work with the model of chair that she uses.

Based on previous experience, I knew that it might be hard to fine-tune exactly where to mount the thing, and it’s hard to predict if where I put it now is going to be where she’ll need it later. I thought that a locking ball-pivot would be a good way to allow the thing to move around and pivot to get just the right angle, and by using two of these joints I’d be able to have some translation front-to-back and side-to-side.

I recently got a real 3D modeling program on my home PC, and so I went to work finding weldable ball pieces on McMaster Carr and whipped up a concept. Here’s what I had in mind:

 

new joystick mount

I was able to cheaply harvest a ball on a post out of a quick-release ball joint linkage (it could have been cheaper and better if I was good on a lathe) and welded it up at Techshop. Here’s what that looked like:

arm pivot-002

You can see from the bending 1/4″ thick steel that the trial piece was getting clamped hard, but each ball joint was still pivoting about the axis normal to the clamping face. I tried to use some aluminum to increase friction on the ball on the right, but that didn’t work out very well. What I eventually did was to take a countersink bit and bevel the holes to provide a wider grip and more surface area for the friction. That got everything locked down well enough that it felt like it wasn’t going anywhere.

Today at practice I got to install it, and the new mount seemed to work out pretty well.

joystick mounted

I wrapped some foam and black tape around it, and it seems like it’s good to go.

DNA thumb drives: How we’ll store holographic videos of cute cats in 2030.

I was reading the news today, and I came across an article that researchers have proven the ability to store 700 terabytes of data in a gram of DNA.

This is amazing! I do not think that anybody as recently as twenty five years ago would have dreamed of where this is going. Back in 1990 the Human Genome Project set out to begin sequencing the entire human genome. It wasn’t until 1995 that a genome had been sequenced- only a bacterial genome much smaller than ours! Finally in 2003, after spending $3 billion the human genome had been sequenced by the NIH project. Some people did have an idea that gene sequencing could be done more quickly and efficiently, and Celera Genomics set out to race the Human Genome Project and sequence the genome first. At a cost of only $300 million, Celera was able to reach a draft sequence in January of 2000.

It’s not surprising that a private company taking some risks could beat a government program on cost and speed, but what is really amazing is that the drop in price didn’t slow down- it sped up. Recently it sped up a lot. For nearly a decade the cost of sequencing a given number of base pairs of DNA was falling at about the same speed as the cost of putting transistors onto microchips, improving at the same rate as Moore’s Law. In early 2008, a new generation of gene sequencers was introduced, and then things went nuts.

Today it is now possible to have your entire genome- your personal genome- sequenced for as little as $4,000, and it can be done as quickly as twenty seven hours. That’s on Illumina equipment, and they have many competitors working to unseat them with new techniques. Regardless of whether those techniques come along this year or next, I have heard talks given where folks who know the workings of the Illumina systems are willing to say that they are able to squeeze more performance and lower cost out of their existing technology with fairly boring incremental improvements, and most people in the business recognize that the $1,000 genome is just around the corner, and the $100 genome is not a crazy idea.

Probably the coolest part of all of this is what it could mean for medicine. The ability to quickly and cheaply read somebody’s entire genome would make it far easier to test for genetic diseases. Today you have to suspect a particular disease and order a test that targets just that chromosome. I once had a blood test to determine whether or not I was a carrier for Spinal Muscular Atrophy.  The geneticist ordered a test to detect the most common mutation of a specific gene to see if I was a carrier. Under certain circumstances I would have been referred for a second test that would do more extensive sequencing of my copies of of genes that produce survival motor neuron protein. These tests will not tell me anything else about my health or what I may or may not pass on to offspring.

When whole-genome diagnostic sequencing becomes common, then it will be possible to say “While we’re looking at your DNA, lets go ahead and see if you’re a carrier for anything else.. or if you’re pre-symptomatic with anything serious”. There are certainly ethical issues when it comes to messing around with our genes, but how much could it improve our quality of life when we can learn ten years before symptoms that we’re likely to be quite ill by the age of 40 with some rare disorder? What if we can devise personalized approaches that can nip the disease in the bud and let us live long and healthy lives? This could mean either chemical drugs or therapeutic insertion of genes into our living cells to change our genetic fate. My only hope is that if such things become possible, the prices will continue to drop at an extraordinary pace so that these treatments do not remain a privilege of the super rich.

Saving lives and improving quality of life is great, but I mentioned holographic videos of cats earlier and I don’t want to disappoint anybody. As the article about the Harvard team said, we are now able to store 700 terabytes of data in one gram of DNA. Isn’t that cool?

I need to go XKCD  on you for a minute to  explain this data density. The highest capacity USB drive that you can buy today (or at least pre-order) holds one terabyte and weighs about 30 grams. Imagine that you have a DNA based thumb drive that holds about 12 grams of DNA in an 18 gram container. You could put that DNA drive on your keychain, and it wouldn’t be bothered by magnets, and within certain limits the data would persist for thousands of years. Such a drive would store about 8,400 terabytes, and if you it would take 252 kilograms worth of flash memory based thumb drives. That’s equivalent to the weight of Andre the Giant at his peak fighting weight holding this rock:

André-the-giant-princess-bride

How much data is that? The Blu-Ray FAQ says a 50 gb dual-layer DVD can hold “over nine hours” of HD video. Since there are 1,024 gigabytes in a terabyte and we’re storing 8,400 terabytes, that’s 1,548,289 hours of full HD video! You could watch cute cat videos for the next 176 years without pausing or seeing the same thing twice.

Sound check, one two!

They have been a long time coming, but I am finally making some headway. I have the laser cut acrylic end caps mated to the cardboard tubes, the DSP programmed, and the woofers in place. Here’s what it looks like so far:

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She. I add the lithium battery pack to this, the entire thing weighs twelve pounds and is surprisingly loud, with a fairly rich bass sound. I’m still trying to work out some cabinet resonance issues and fine tuning of the DSP crossover, but it feels like a milestone worth posting. This thing can piss off the neighbors.