My go-anywhere "lab" tools - Scientiae, September 2010

This month's Scientiae topic is research equipment. For me, it's pretty simple. My main equipment consists of my laptop, research group computers, the department computing clusters, and a supercomputer or two. So, yeah, computers. "Lab" is a foreign concept.

This setup lets me work from many locations. In the past few months, I've worked from Wisconsin, Illinois, Tennessee, North Carolina, Virginia, and Maryland (I was too tired in Ohio and refused to open my computer in New York). I can log on to any of the big computers through the internet. Even the data I use is available remotely. I download it to my laptop or directly to one of the other computers from whoever stores it (usually some government organization).

I use the terminal window religiously. I recently added nxclient to my repertoire, which gives me a GUI desktop for an interactive node dedicated to my research group. That's handier than I expected. Between these two interfaces, I can run programs interactively or in batch mode (submit a job that will run when the resources become available).

I reroute the output into a text file so I don't have to babysit the program, I can review the output later, and the program will not crash if my laptop dies or I lose my network connection. If I had to run everything interactively and couldn't record the output, I would have violently and permanently killed at least one computer by now. As it stands, I have non-violently killed several computers several times (including single-handedly jamming the department cluster), but I, my adviser, or the sys admin were always able to bring them back.

And my little macbook is the portal to it all. It's wonderful and dangerous at the same time.

Finding motivation in observing science

I didn't present at the workshop in Knoxville. I wish I had something from my PhD work to present because I was a minority in focusing on the physical and dynamical aspects of climate science rather than the chemical and biological. I think I would have added breadth to the two days of talks.

Since a lot of them focused on chemistry and my last chemistry class was introductory chemistry for science majors six years ago, I did not understand many details of the studies. Nonetheless, I found the workshop valuable beyond the basic conclusions I gleaned from each talk. Hearing about other's work inspired me to return to my own research. Perhaps Musings of a Life-Long Scholar hit on a good motivational tip: read 1000 words of scientific literature at the start of each work day. I might remember more of the literature that way, too.

Ironically, it is difficult to work while at a workshop. I attended talks all day and networked/socialized in the evenings. It was a perfect time to run programs that require hours of computer time and little babysitting. Running those programs gets me much closer to finishing the figures I need for the MS paper. I hope to have a full draft by Labor Day weekend, if not earlier.

I realize I've set goals like this before and missed them. Too often. I need to meet one of them to restore confidence in myself as a self-driven student. I used to know that without question. I'm not always sure anymore. I keep telling myself that I need time to adjust to the personal upheavals of the past year. At what point do reasons become excuses?

Second post of the day so I can catch up and blog about something current for once

I know, when it rains, it pours, and now I've given you two posts at once after a week and a half of nothing. At some point I'd like to return to blogging about current events. No time better than the present, right?

Recent events have caused me to disappear from my journal and blog. I hope to remedy that now that a couple of deadlines and other important dates have passed. What were these events, you may ask. Well, I'll tell you (and I'm not going to sing it)...

When I got back from the conference late on October 1st, I had to catch up on a week and a half or two weeks of class work that I'd ignored while working on my poster. It was worth ignoring classes to the extent I could because my first ever poster turned out quite nice. I was somewhat disappointed with the poster session, as I mentioned, but the poster itself looked good and had good information on it. I think the problem was more with the conference and lack of interest than the poster itself.

Back to the missed class work...I had a homework assignment due the second day back in town, which I finished on time, and loads of reading. Reading is easy to ignore.

I was also a bit burned out on research because of spending so much time working on my poster before the conference, so I needed a break. My first full week back, I did very little research and focused on classes and house stuff. Did I mention that housework was very low on my priority list? Frankly, the house was a mess. It hasn't really recovered yet and I don't expect it to recover until we have to pack everything up to move out. The boyfriend and I will be very busy next semester, wo I expect to be eating a lot out of boxes, bags, and cans.

My advisor was also very busy. He only had a week and a half before a two-week international trip to attend two conferences back-to-back. His wife had already been alone with their two small children through the other conference and single-handedly cared for them while he went to the international conferences. In the time between travel, he needed to give her a break to get some of her work done (she's finishing her dissertation). He also needed to work on a seminar, a talk or two, and a poster. I tried to bother him as little as possible.

Then the advisor was gone for two weeks in a foreign country with poor internet access. He was barely available via email. I spent the first week of that reading background papers for a fellowship proposal. The second week I worked on massive data transfer and processing. The computing cluster I was putting it on had a few issues with its setup, so those had to be worked out in the process, and I initially didn't have the permissions I needed to put the files in the correct directories. It took a large part of the week to get all that worked out. I also learned a bit more about shell and batch scripting, which I'm sure will be useful in the future.

Now that the advisor is back, things are getting a bit easier and moving more quickly. He's still busy this week because he's filling in for the person who subbed for him last week, but he'll be in town for the rest of the semester.