…that I would grow up to be a pseudo computer nerd doing stuff related to animals. (sarcasm…)
I was recently reminded of the online game Neopets*. Anyone out there remember this game? Mom – do you remember me playing it?
It was sort of like a computer based Tomogatchi and Pokemon hybrid. You had pets, that were cute and colorful and had names. You had to take care of them, and you could play games with them. You’d collect points (Neocoins) that you could use to buy things for your pet, all that good stuff. You could also have a store in the Marketplace where you could sell extra stuff you had, or buy from others. This is where I should have known I was going to grow up to be a giant dork who finds joy in creating things on computers. I LOVED working on my storefront. I loved teaching myself HTML. Then I could have the coolest fonts (WordArt anyone?), sweet backgrounds, terrible color combinations.
For many of you, this may also remind you of Myspace…another great venue for my web customizing talents. I was pretty late to the Myspace game, but when I did, I made sure to try and have the MOST personal and customized page.
So what does any of this have to do with marine bioacoustics? Um…nothing really? I was just having a lot of fun making some animated spectrograms (see here for the HOW TO – thanks MicheW!) and I think that is what got me thinking about all this. Plus Samara said she remembers this too, so I’m not the only one.
*this is somewhat deceiving. I made it sound like someone else reminded me of Neopets. That’s not true. Ah the pitfalls of passive voice. I (me, Selene) remembered Neopets all on my own. I’m not sure why or how. But then I ended up googling it and it still exists and here we are, and I’m writing this, fighting the urge to make an account again.
I haven’t posted in a week? Poor blogging, Selene!
Ok as promised, I wanted to post about what our day-to-day life has been like out here. Amazingly, today is our last day! I am on shore right now, making small adjustments to glider that we will pick up at noon. The rest of the team is out picking up the DASBRs and QUEphone. They will come in, we will unload gear, then go back out to get the glider.
After almost two weeks of going out everyday, we got the system down pretty well. We got stronger, and faster, and spirits remained high throughout!
Days start early – up around 5 am, for a 5:30 departure. 3 of the crew went out each day, because there wasn’t really room on the boat for 4 + all the gear, and that way we had a person on land who could give us instrument locations if we had trouble finding them.
Our main objective was to pick up all our floating/drifting recorders, and move them back up current (to the southwest) so they could drift over our moored instruments, and along the glider path, again over 24 hours.
We started each morning with an empty deck (except for a few empty tubs where line goes).
It took about 1:15 to transit out to where the instruments were floating. We had GPS coordinates for about where they were, and then half of them also had these really awesome dog trackers attached to the mast. When we were within 3 miles, the handheld receiver would point us in the direction of that “dog”. They are made for hunting, so if the floats didn’t move very fast it would alert us that our “dog” had “treed a quarry.” That was always good for a laugh. Then, using those to get to the general area, we could use relative positions of the others to find them. Some days lighting was better than others, but we always found them eventually.
Once we found an instrument, we marked its recovery location, and started to pull line. This was the fun part 🙂 the DASBRs have a surface float, and then 100 m of line down to a weight. Near the bottom of that is the two hydrophones, and depending on the type of DASBR, somewhere in there is the recording device and batteries. We all decided on our favorite and least favorite types of line to pull, and we’d share the work so it never seemed that bad! Each one took about 15 min to recover.
Every other day we recovered the QUEphone as well. It was drifting at 500 m, where the currents were slower, so it took two days to pass the HARPs. For that, Haru would text us when it surfaced, at about 8:00, then we would go grab it. Easy peasy.
After everything was loaded in the boat, we would head down to our deployment location.
We made minor adjustments to the deployment location each day, after looking at the currents from the day before. Everything stayed in formation as best as we hoped…which was awesome! The formation is critical to us being able to localize the animals we record. Heading to the deployment location took about 30 mins, where we would then drive from point to point making a rectangle. Letting the line out was super fun (compared to pulling it). If we had the QUEphone we would chuck it (gently of course) into the water, and head back in, another 1:30 transit.
While we were out there we did our part to collect mylar balloons we encountered (Please think twice about purchasing them…they don’t break down for a VERY LONG TIME and all that shiny plastic and string can look like a tasty treat to marine life). We also collected water samples in the vicinity of animals, for our the Cetacean Conservation and Genetics Lab at OSU, for an eDNA project Holger is working on with them.
We usually got back to the lab in early afternoon, again with an empty deck. Afternoons were filled with looking at instrument paths, planning for the next day, starting to look at data, discussing science, celebrating the good news for the Vaquita, and sometimes taking naps 🙂
It’s Day 7, and I’ve got the morning off from going out on the boat, so I figured I could do a little blog updating. Jay, Holger, and Danielle are out on the small boat today, and Dave sadly left us to go back to Oregon yesterday.
Most important update – we HAVE drank/ate? affogato’s!! On Friday evening we walked into town for a fancy dinner out, to Two Harbors FINEST (and only) dining establishment, the Harbor Reef Restaurant. Jay was thoughtful enough to ask the waitress if she could make affogato’s for dessert, and once he explained what they were (espresso over ice cream) she said “No problem!” It was the perfect way to wrap up our first week here. (EDIT: I did not, in fact, have any of the affogato. I don’t like coffee. I was called out for this shortly after posting. I apologize for my deception)
Second most important update – we’ve got a QUEphone in the water!! (or maybe more important?)
On Thursday, Jay, Dave, and I went out at 6 with the plan of recovering 6 DASBRs, redeploying those and adding the final 2 DASBRs to the mix. (More info on DASBRs here. Drifting Acoustic Spar Buoy Recorder…I just learned a spar buoy is a long thin buoy. Fun facts!). After picking up the DASBRs, I went to prep the QUEphone for deployment, and guess what? I forgot the communication cable. I had the laptop, the battery, the spare battery, the serial cable for the computer, the alligator clips off the serial connector, but not the one connector that goes on the QUEphone’s 6-pin port. IDIOT!!!
Needless to say I was really kicking myself. BUT, Dave came to the rescue. He explained to me that of the 6 pins in the connector, its likely only one of them was needed for the communication, and using some electrical tape and a piece of wire from Jay’s toolbox, we might be able to do it. We contacted Haru (who designed the QUEphone) over the satellite phone, and he told us exactly which pin we needed to connect to. He was definitely worried about is doing this…and he emphasized how if we touch ANY OF THE OTHER PINS with the wire then we would fry the whole thing. Dave and I felt we could do it, very very carefully, and, well, the QUEphone is out there now soooo it worked!!
Dave cradled the QUEphone while I ran the self tests, then we disconnected and it sunk, like we hoped! We found out it originally didn’t sink on our first day because it was too light. It sinks by deflating a buoyancy bladder, and the settings were incorrect for our environment, it was set to deflate to 110 cc, but we needed it to deflate to 55 cc. Once we had fixed that, away it went! Woo!! My embarrassment over my packing error quickly went away. (well maybe not completely, I’m still pretty ashamed….)
Since then, the grind has begun. Every morning, out at 5:30 (we start early to beat the wind that picks up in the afternoon), pull several hundred meters of line, let out several hundred meters of line, repeat. Every other day we pick up the QUEphone and drive it back south so it can drift north again.
Glider is also still flying pretty well. So we will continue on like this. Stay tuned for “AFFOGATO – A day in the life”
I’m happy to report ALL our instruments are now in the water and happily recording marine mammals in the Catalina Basin (lots I hope!).
Day 1 we did some testing at SWFSC, and got everything prepped for our transit out to the basin. Testing went as planned, and so we loaded the boat and had some time to kill at the harbor. Ate good seafood and hung out in the sun. I got sunburned already of course.
At about 7 pm we departed San Diego Bay for our overnight transit out to the basin. We decided (we?? it was Holger’s idea…) to get up and start deploying instruments as soon as we arrived on site, which was scheduled to be 4 AM. Yup. Moonlight deployment. That was a first, but fortunately the moon was full.
The currents in this area can be complicated, so we had come with somewhat of a plan, but knew we would have to play it by ear. So when we first arrived we deployed one of Jay Barlow’s floating drifters (DASBR) and watched its drift for about an hour. We deployed the first mini-HARP at its planned location, and then after assessing the drifting buoy, we went to deploy the second mini-HARP. Fortunately we deployed it right where we thought we would! That made things for the glider much easier. After getting both HARPs in, we picked up the first DASBR and drove back south to deploy a whole array of 4 DASBRs. This is how we will localize the animals, by using triangulation of calls recorded on the different instruments.
While this was going on, I got to work prepping the QUEphone, and this is where things finally started to NOT go perfectly as planned. The first QUEphone just would not sink! Weird…wanting an expensive piece of electronic equipment to sink, but that is exactly what we wanted. The QUEphone is designed to sink up to 2000 m, and drift along with the currents for 24 hours, then come back up to the surface and check in. Well, when it stays at the surface we can’t record anything, and that is not what we want. So we brought that one back on board. Lucky for us we brought a second QUEphone just in case. Unlucky for us, it also had issues, but it had communication issues. We tried deploying this one as well, waited a while, and ended up recovering it when it too wouldn’t dive and was having iridium communication problems.
And last, but certainly not least, we deployed my beloved glider, SG607, aka Will. Will got a new sticker before deployment, and this deployment went super smoothly! In large part due to the big swim step on the back of the boat where we could carefully lower the glider and hold it off while we did some final tests, and also with many thanks to Anatoli Erofeev, a glider pilot in CEOAS at OSU who has basically taught me everything I know about glider piloting that isn’t in the pilot binder (which is possibly more valuable when it comes to troubleshooting 🙂
After all those (mostly) successful deployments, we headed to Wrigley Marine Science Center, where we will be based for the next two weeks. We arrived earlier than we had planned (thanks to our 4 am start…) but that was good because, well, we had A LOT of gear to unload and unpack.
So, this post is turning out to be more about Day 2 then Day 4 huh?
Well Day 3, a field team of Danielle, Jay, and Dave went out to move the 4 DASBRs back down south (They had drifted a perfect 12 km NE and needed to be reset) and deployed two more.
Day 4, Dave, Jay, and I went out and recovered/redeployed 6 DASBRs and deployed 2 more. PLUS we deployed the QUEphone – yay!!!! It worked, I’m stoked, but also very tired, and will write another post about this tomorrow.
Most of my time with bioacoustics, thus far, has been with playing sounds – my master’s work with an active acoustic tag – or with identifying odontocete, or toothed whale species, in glider data (typically known as high- or mid-frequency vocalizations).
For my PhD, I’ll be expanding what I know about whale acoustics and looking at baleen whales from glider and float data as well. I started into this the last few weeks and it has been fun, but definitely feels like a step back in time trying to look up literature and see what exactly I am hearing in the data – I’m not used to working with low-frequency sounds.
What do I mean with low- vs high-frequency sounds? These labels are based on human hearing (of course). Humans (babies!) can typically hear from 20 Hz (hertz) to 20 kHz (kilohertz…hertz*1000; 20 kHz = 20,000 Hz). As we get older we start to lose hearing on the higher end. But marine mammals vocalize both below and above our hearing range. The low/high delineation is “generally” accepted at 1 kHz, and typically baleen whales vocalize below this, and toothed whales vocalized above this. But remember, this is just USUALLY. There are always special cases that don’t follow the trend, and its all relative terms when calling things low and high.
This figure from Mellinger et al. 2007 is a great way of see where certain species typically vocalize. (Click he figure to link to the PDF of the paper and zoom in)
Looking at sounds
So since some whales make sounds below my hearing range, and some make sounds above, how do I hear them for analysis? Well first of usually I am identifying sounds by looking at them, at a spectrogram (we’ve posted those before right?).
Then sometimes I need to listen AND look to identify what the sound is, or gather more info about it. Wonderfully there is a work around. For really LOW sounds, you can play them faster, and then that increases the perceived frequency, so you can hear it. Vice versa, for really HIGH sounds, you can play them at half speed, which changes the perceived frequency, and then you can hear them. Does anyone remember Yakbaks? Speeding up your voice makes you sound like a chipmunk, slowing it down makes you sound like…a whale?
Well, this post is LOOONNGGG overdue. But that happens right? It’s still a story worth telling 🙂
I haven’t posted in a while, so lets touch base on the last three months of my grad school life. Michelle mentioned that many in our lab attended the Biennial Meeting for the Society for Marine Mammalogy. It was crazy, but awesome. I gave a talk on my master’s work and was the most nervous I have ever been to give a talk…biggest audience, TWO screens, up on a podium. EEK. I think it went ok though. And the best part of all was that my dad snuck in to watch. And more importantly he refrained from asking a question and embarrassing me.
But that wasn’t even the point of this blog. I just had to brag about my dad coming to my talk because how many grad students get to say that??
You all know I work on gliders (and here, and here, and here) by now, right? (note to self – write a blog post on HOW exactly gliders work).
Well, I do. And two parts of my PhD are to compare gliders to QUEphone floats, and to work out density estimation from a glider. To do this, we need to fly gliders and floats at the same time, and we need to fly them in a place where we have known locations of animals (which we get from other hydrophones using localization…I’m sure Michelle will talk about this some day soon). Then we can figure out how far away each instrument can hear the animal, and then we do a bunch of stats, and voila! All the world’s problems are solved.
So to get the known locations of animals, we are doing two sets of field work – one using a permanent hydrophone array of bottom-mounted hydrophones called SCORE, owned and operated by the U.S. Navy, and one this summer…more later. These hydrophones were originally setup up, and are still used, for Naval training purposes, but guess what, they also hear whales. Now the M3R program of the Navy Marine Species Monitoring program can use these recordings for studying marine mammals on the training ranges. Anyway, for us to get to use it, we had to do it in the very brief window between Christmas and New Years.
Deployment – Dec 20
Right after the marine mammal conference, I went home to my parents house for a day, then flew down to San Diego, Haru, Alex, and I went out on the deployment, and things went mostly as expected. We were only able to deploy one glider because one had an antenna issue, but we also got two floats out. Yay!
Flight time – All good UNTIL Dec 30 – when we started to have communication issues with the glider…that we COULD NOT RESOLVE. The glider was trying to call the base station, we could see the lights on the modem lighting up, but it could not connect. Come to find out, as phone lines are being updated, sometimes this happens, and there was NOTHING WE COULD DO ABOUT IT. But the glider is still flying we know that, that’s good.
Recovery – Scheduled for Jan 4
Alex and I were slated to fly down from Portland to San Diego, head out early in the morning on the 4th (it takes us about 7 hours by boat to get to where the stuff was), and try to find the glider, that will surface for about 15 mins, every 5 hours, in 12 foot seas, within 2 km of a particular point.
So already, I’m NOT feeling super optimistic about it. Oh and then the offshore weather forecast is bad. Real bad. Like we might get down there, head out of the bay, and have to turn around. I was thinking if we pushed it back we might have a better chance of fixing the communication problem and find a better weather window, but remember, we are working on a typically ACTIVE Navy Range, we have to get our gear out of there before they start training again. So lets go forward as planned.
Wake up Sunday morning, Alex is going to drive from Newport to Corvallis in our rental car, so we can drive to the airport for our midday flight. Guess what. It snowed. Our rental car wouldn’t make it over the coast range. SO. We reschedule our flight for later. Alex gets a ride over the hill from Haru, who has a truck. We take my Subaru to the airport. WORST DRIVE EVER. Corvallis snow melted, Portland was in a full on ice storm. Cars sliding off the road everywhere, somehow we make it (Thank you Remy Lebeau…my car).
Oh but wait, halfway there, I get a text message that our flight has been cancelled. Alaska automatically re-routes me: Portland to LA, LA to Seattle, Seattle to San Diego..midday on the 4th. REMEMBER we need to get our stuff on the 4th. The weather forecast has gotten worse for later in the week…Monday is our only chance. Oh and bonus, Alex got rerouted as well…for Tuesday the 5th, at 7pm, direct flight Portland to San Diego. SUPER GREAT!
But don’t worry, I’ve got a plan. We fly to LA, just to LA, we rent a car there, we drive the two hours to San Diego, its all good. Granted, the LA flight is from 8-10, so we would get down to San Diego by about 1 am, but we would make it to the boat for our scheduled departure at 4. So ok…lets do it.
So we call Alaska, and we wait on hold, while driving through ice, for like 45 minutes. Finally we get through to this very nice woman, who fixes everything (oh and we have to run all our travel through our accounting people too, on a Sunday night, so there are lots of calls being made). Alex and I, both on the flight to LA. Great.
We get to Portland, we park, we check in for our flights, we go to Enterprise to switch our car reservation to LA. We wait. Guess what…LA flight is delayed. Yup. Ok, we board, only an hour late. Then we sit. On the tarmac, while the de-ice the plane. Yup. I’m a west coast girl, born and raised….this is all so weird to me!!!!!!
So we make it to LA. Midnight. We sit. On the runway. For an hour. Because our gate had an oil leak. YUP. ok…we get off. its 1:00. Remember, we are supposed to be at the base at 3:30, to meet our escort to the boat at 4. It takes 2 hours to drive from LA to San Diego. So we’ve got 2.5 hours. WE MIGHT MAKE IT!!!
The enterprise shuttle is late. Its supposed to come every 10 mins, its too far to walk (45 mins, we mapped it). It comes…1:30. We get to Enterprise. WE SPRINT OFF THE BUS to beat everyone else on it (it was very crowded because we weren’t the only travelers with issues).
We get our car. its 1:45. We start driving. Thankfully I used to live in Southern California so at least I know where we are going. Plus Alex helps me navigate. We text the boat crew…we will be a little late. Forget checking in to our hotel, we are going straight to the base. YAY WE MAKE IT TO THE BASE AT 3:45!! Did I mention its raining now, and again the glider isn’t really communicating so we will be finding a needle in a hay-stack of waves. But we actually made it to San Diego.
Then we sleep. The AMAZING crew had our beds all made 🙂
—took a break from writing this blog post to get free cake—
Ok, so we sleep, for a while, till like 7 or 8, then my phone starts beeping. The crew says we are getting close. We discuss where exactly we are heading. We are super far offshore BUT we have this super cool satellite phone wi-fi hub thing that can forward sat phone texts and calls to my regular phone wherever I am on the boat (WHAAAATTT). Haru is giving me up dated info on the floats. AND. WHAT. MIRACLE. THE GLIDER CALLED IN. Oh side note, it is super rough and I’m looking at computer screens at this point and repeating over and over in my head “dont throw up dont throw up dont throw up”.
So now we’ve got a glider location, but we are a couple miles away and we don’t know how long it will stay at the surface. I go to lay down for a few minutes while we move towards it. The captain comes into the server room where are temporary bunks are. “Uh….I think I see it…”
I jump up. Run outside. There it is, sitting in a kelp patty. Just sitting there. I suddenly do not feel sick. I hug the boat captain (I can’t help it).
Then the fun begins, because its so rough and we are on a pretty big ship we deploy a little RHIB (all black, Navy style) off the back of the boat and go out to pick it up.
The rest is somewhat less memorable. The floats were easy to find, the sun came out and I lay on the back deck soaking it up, the crew made dinner, we drove in, got to the hotel at 8 am the next morning, had a mimosa, slept, packed everything the next day, and flew home.
This turned out a lot longer than I anticipated, and perhaps the stress and anxiety and then happiness did not come through this…but writing about it brought back some heart racing…so trust me…it was stressful. But it all worked out. Yippee!! Now I can’t wait to look at these data and actually do something with it.
Plus..serious shout out to Alex, hes glider tech/pilot/friend I could have out there.
Well, not really. Not the whole thing. But I finally feel like I have sort of the start of an idea of a plan. Yesterday I gave a talk at the Marine Mammal Institute Brownbag series at Hatfield Marine Science Center. I took this opportunity to try and sketch out what I will be focusing on the next few years.
I got some great feedback that will really help me going forward. For example:
The problems you discuss seem similar to problems that were worked out for visual surveys in the past. That would be a great place to start in your literature search.
Great point! That’s kind of what I was trying to convey…so yay!
Well. If I’ve got one thing to say. It’s a lot.
Again…I agree. I hadn’t realized how big it all seemed until I got it all out there. But it’s a highly collaborative project, so I think it will be doable? And I’m sure things will get tweaked. But I do need to be reasonable here.
You really nerded out up there.
Heck yes I did! Gliders! Woo!
**I paraphrased all of these so I won’t put the names of who they were from 🙂 I think I got the gist of what they meant?
About one year and 3 weeks ago, Danielle touched on the value of taking time to just think. Not day-dreaming just thinking about all of the Patagonia jackets I want to buy, but thinking about my project, my science, what….and why…I’m actually doing…and doing it.
Since I defended my Master’s in May, life has been a whirlwind. I had a few travel plans for the summer (a conference in July and some field work coming up in a week), there were gliders to be piloted (in Newport and the Gulf of Mexico), I needed to finish up my manuscript of my master’s research and submit it (still in progress…), and there were reports – oh reports – to be written.
Every time I come to blog I can’t remember how much I’ve talked about what my PhD will be about. I feel like I haven’t really, because I don’t even know that well yet! (That is where this whole idea of thinking comes in right now)
The basics, though, are that I’m part of a large scale monitoring project involving flying gliders outfitted with passive acoustic recorders in several different naval training ranges around the Pacific. All of these glider flights are funded NAVFAC, aka the operational U.S. Navy. They want to know what cetaceans are in the areas the use, and when. We have to answer their basic monitoring questions, and then I will get to use this HUGE dataset to do something for my PhD. But first, we have to answer those questions. And that is done in the form of a report. The thing about these reports are that they have deadlines. Very strict deadlines. And they are all stacked on top of each other. So since May it was – analyze MIRC, submit MIRC draft, get MIRC draft edits, revise MIRC draft, submit MIRC draft to Navy, get Navy edits back, submit MIRC final. Then lets put in the exact same thing for HRC (Hawaii) and go over it again:
Analyze MIRC, submit MIRC draft, analyze HRC, get MIRC edits, revise MIRC, submit HRC draft, submit MIRC draft to Navy, get HRC edits, revise HRC draft, get MIRC edits, submit HRC draft to Navy, revise MIRC, submit MIRC final, get HRC edits back – ok – this is where we are at…..now waiting a bit…oh and the Washington and Alaska and other Hawaii reports are do mid September and October and November.
All this happened in a matter of 3 months. That may seem like a lot of time, but please remember all the other stuff going on. Anyway, I’m losing focus here, the point of all of this is that since finishing my Master’s and shifting my focus to my PhD, I haven’t had a chance to stop and THINK. And that is what I’m tasking myself with for the next little while. It’s easy to get caught up in the “putting out fires” way of working. One deadline to the next. But I have to stop right now and think about what I am actually doing. I am a graduate student. I’m learning to be a scientist. And I need to spend some time coming up with the questions that will ultimately make up my dissertation.
So with that, I am ending this blog as the stream of conscious that it is. And there are no pictures. And I’m sorry.
Lately I’ve been doing some “field work” although that is not nearly as glamorous as my labmates Michelle and Samara are doing right now. I am piloting a glider in the Gulf of Mexico for a monitoring project around the area of the 2010 Deepwater Horizon oil spill. This is an awesome project because it is using three types of passive acoustic monitoring systems: gliders, autonomous surface vehicles (that look AWESOME) and bottom moored hydrophones. However, me piloting means staying in Oregon with a strong internet connection and doing all of that from my laptop, so I don’t have any cool pictures, or fun field stories. This deployment has been going very smoothly, compared to the test flight, knock on wood.
Anyway, Sara Heimlich, of the OSU/CIMRS Bioacoustics Lab, has been maintaining a great project website and I encourage you all to check that out for more detailed info…and cool field photos.