DC isn’t all that bad, really

I came across a post on DCist today; the post was published a little over a week ago, but I think th news is still pretty awesome. Apparently, cell phone service will be available in the 20 busiest stations in the DC Metro system. Beginning in mid-October for customers of the four largest cell phone service providers (AT&T, Verizon, Sprint, and T-mobile), with service in te other 26 stations within a year.

Better than New York, but the system doesn’t run 24/7.

Recent local abundance of luck

Things haven’t been going particularly well for most of the summer, at least with regard to work in the lab, and I had been fairly annoyed by it all. Some of it was likely due to the fact that I was exhausted from moving from Alexandria to Pentagon City gradually and without the melp of movers, but most of it was the direct result of inefficiencies in the lab finally becoming apparent.

Luckily, I wasn’t alone in my frustration, and consequently, had help from my intern in trying to address some of the issues we were having.

Oddly enough, as inappropriate as venting my frustrations about work at work probably is, it helped a lot, not only to sort o my feelings about it and finding a solution, but I think also made me a little less scary and distant to my intern.

Since then, things in the lab have actually been working pretty well — well, at least until today, when I discovered a problem with the protocol I was using. I can still use some of the data that I generated; just not all of it.

What actually prompted me to write this post was actually what happened to me on the way home — a “no passengers” train pulled into the Gallery Place station and turned into the train I needed, saving me the 10 minute wait for the next train home since it was 8:30 pm.

Future plans

I no longer want to go to graduate school or medical school, and while a large component of those decisions are rooted in my own personal feelings on the matter given the experiences that I’ve had. However, the graduate shool decision still has a giant “maybe” attached to it.

Med school has been ruled out in my mind largely because I haven’t been able to convince myself that it’s something that I want to do. I know what prerequisites I must fulfill or possess, and yet I have not been enthusiastic about completing them. However, the availability of time has always been an issue. That said, this fact invites at least two questions: first, I time as an still is an issue, and medical shool was an important goal, why did fulfilling the necessary requirements not take priority in my life? Second, clearly my life/work balance is already an issue I have demonstrated vey little skill in managing; what hope would I have in improving that skill should I become a doctor?

Graduate school is, in my mind, a better fit for me than medical school, and yet even there, I’m not sure it’s the right thing for me to do. Perhaps I’ve only had experience in a field of science that doesn’t captivate me the way I would need in order for me to really want to devote my lfe to its study. As far as I can tell, money will always be an issue as long as I am in science, and I think that it will only be with great luck that I could fix that problem within the spam of 10-15 years. In the meantime, it appears that I would be tied to research, unable to travel, build up personal wealth, or own property, though that last point would be possible only with great difficulty. To be honest, I haven’t totally excluded this path in life, but I am actively looking for other options.

If I do choose graduate shool, I am sure it would not be in the field of biology or any other field that would direct me into basic research. I enjoy science and I feel that I am never satisfied by the knowledge that I have and am constantly trying to expand upon it. My interest always has and continues to be te use of computers to solve a wide variety of problems. Every time I learn about some new way of using computers or interacting with them or using them to interact with the world, I get really excited and it instantly become my top priority to go out and find as much information as I can on the innovation and apply or expand upon it.

I suspect that computer science maybe the field I should consider most seriously, but I am concerned about barriers to entry, given that my undergraduate major was not in that field. I have been told that this shouldn’t matter, but it’s one thing for me to know and believe this. It’s another for a recruiter, someone in an HR department, or an admissions office to have the same opinion.

If I can figure out a way to transition from biology and engineering to computer science and engineering as design, even if all I can come up with is at best is a poor excuse for a life plan, I will be extremely excited and motivated to embark upon it.

As a side note I should also add that consulting is also a possibilty as far as future career plans go, but to be entirely honest, I don’t know anything about it. I haven’t been given any explanation as to what it is or what is invoved that leaves me satisfied. As such, I’m not entirely convinced that it’s a good fit for me.

New lab software!

Disclaimer: this is an extremely nerdy post.

First, a bit of background: to examine the location of proteins and stuctures inside of cells, we can fix and then stain those cells with antibodies conjugated to fluorescent molecules or proteins.  To image these cells at a very high resolution, we use the confocal microscope with a UV and/or laser light source.  This microscope is connected to a  computer so that we can make fine adjustments, improve the color balance, and control the laser settings.  We can do more image analysis on other computers not connected to the microscope using a “light” version of the software used to actually run the microscope.

I haven’t been able to do that on my home desktop because the software, ZEN 2008, was incompatible with 64-bit systems, and so I’ve had to do this either at work, or on my laptop.  However, it turns out a new version was recently released, ZEN 2009, which is compatible with 64-bit systems, and works beautifully.  Hooray!

The only downside is that the microscope sees a lot of use, and often, I can only get time to use it during off-peak hours, e.g. not a weekday between 7am and 6pm — like yesterday, 6pm-9pm.  :(

Maybe I’ll generate some nice images from my data at some point and I’ll be able to do something really nerdy and use my own data as my desktop background.

Healthcare Reform

I’ve been listening to/watching a couple political podcasts, Countdown and Rachel Maddow, on my way to and from work every day for a while now. It helps me keep up with everything in a fairly efficient and effective way.

Lately, the issue being discussed in the political world that has piqued my interest has been healthcare reform. What boggles my mind is how long healthcare reform has been an active issue in Congress. It’s not a few months or even a few years. Try a few decades.

Last night’s Maddow show had a segment with video clips of recorded political speeches made by Bill Clinton in 1993, Ted Kennedy in 1978, and President Truman in 1948. That’s at least 61 years that this has been an issue in this country, and currently, certain members of Congress are arguing that healthcare reform legislation is being rushed through Congress.

It’s absurd that healthcare is considered anything less than a right in this country, given the vast material and human resources available. It’s unconscionable that we would deny healthcare to people simply for being poor, unemployed, or just too sick. These are exactly the people we should be providing healthcare to, and in the same manner that the government became the employer of last resort during the Great Depression and then later a primary employer in the nation, the government should formally become the insurer of last resort now, with the aim of also becoming a competitor in the insurance industry.

It’s naive to think that the government isn’t already the insurer of last resort for a significant number of people — the government already supports millions of people through Medicare and Medicaid, as well as through payments to hospitals that treat people who are uninsured. It’s an incidental and informal insurance arrangement, and it is inefficient and expensive for a number of reasons. To believe that it is fine and does not need to change, or that it should only be changed more slowly than it already has is foolish at best.

Selfishness in shared environments

Most of my responsibilities at work in the lab as far as actual scientific work has involved finishing up projects and experiments for papers submitted for publication but never completed by postdoctoral fellows and graduate students before they left the lab.

At this moment, I’m working on two such projects; one of which I am working on with the help of an undergraduate intern who had worked on this same project last year. It would be perfectly fine if the graduate student who had worked on this project as part of their dissertaition had actually made it possible to repeat their experiments, but they didn’t, and I can only describe this behavior as completely selfish douchebaggery.

Proper scientific protocol requires that your work be as well documented as possible such that your results can be independently verified. Independently as in a completely different lab. The expectation of acceptable documentation within the *same* lab, however, extends to the proper documentation and storage of reagents, especially those which are extremely expensive.

This graduate student completely and utterly failed in this. Nothing was documented in enough detail for anyone to exactly dupilicate their experiments, the reagent list was incomplete, and worst of all, very few of the reagents they used could be found. Those that could e found had been improperly stored
And had therefore expired or degraded.

This is beyond frustrating not only because it makes repeating experiments dificult, but because it results in a massive expenditure of time and energy for and experiment that won’t work due to bad reagents. These failed experiments brought my intern to tears today after having worked all of this past weekend and also digging around in the -80 degree freezers last week.

My intern has done an amazing job, and it’s extremely unfair that all of this hard work has been thrown away because this grad student was too lazy to not only properly document their experiments but also properly store their reagents so as not to waste everyone else’s time and significant amount of the lab’s money.

I don’t understand how they got away with it, and I wish there were something I could do about it.

Alternate WordPress posting options

As part of an effort to actually update this blog regularly instead o letting it slowly die like my old blogspot blog, I’ve been looking at a numer of different way of submitting new posts to this blog.

E-mail is nice, but typically I’m only at a computer either at home or at work… The problem is, only one of those places is an appropriate environment to be writing blog post, at least for me.

I do, however, spend a lot of time commuting, even after having moved closer to work. This presents a pretty good environment for writing blog posts, provided I don’t get motion sickness too quickly. The only issue is, I would need to find some way of efficiently writing blog posts and saving them to be uploaded once I regained acces to an Internet connection.

Surprise, surprise, there’s an iPhone/iPod Touch app that does exactly this, and it’s free! I’m using it now just to test it out, an it’s actually not too bad, though this might be more of a critique of extended typing on the iPod Touch than it is of the WordPress application.

Postie!

The built-in WordPress PHP script to grab e-mails and generate blog posts from them wasn’t particularly good, so I’m now using Postie (http://wordpress.org/extend/plugins/postie/), which seems to at least offer more features, though this post is really an experiment to see how well it works.

I keep having issues with the built-in WordPress installer, so I think I’m just going to use the command line and grab everything via wget.

Edit: This worked perfectly, and I definitely like Postie more than the built-in wp-mail.php method. Definite plus: being able to add tags to the post by e-mail, among other things. I’m going to have fun with this. Also, Postie supports POP3 with SSL without my ssl://server hack. I think it ends up working the same way, but the additional layer of abstraction makes it dead simple for a first-time user.

Posting to WordPress via GMail

Posting by e-mail to WordPress works using the POP3 protocol, but it’s not over a secure connection by default.  In order to make this work with GMail, enter the POP3 server address as ssl://pop.gmail.com over port 995.  With the appropraite account settings, and provided that your server has the PHP SSL library compiled and installed, this should work.

Upgrading to WordPress 2.8.2

I just installed WordPress 2.8 on this host using Fantastico via cPanel X, and WordPress was telling me to upgrade to 2.8.2. I noticed that there was an automatic upgrade option; all I had to do was enter the FTP/SFTP for my site, and the WordPress script would handle the rest.

The first time I ran the upgrade, however, it threw an error back at me:

Downloading update from http://wordpress.org/wordpress-2.8.2.zip

Unpacking the core update

Could not copy file: /public_html/wp-content/upgrade/core/wordpress/wp-comments-post.php

Installation Failed

Annoying, to say the least. A little bit of searching turned up a possible solution: checking and repairing the MySQL database tables. There’s no reason I can think of that this should work, but it’s a nondestructive method, so I figured I’d give it a shot. I had phpMySQL check and repair the tables in the WordPress database that had been created, and even though nothing appeared wrong, at least according to the status messages, doing this fixed the automatic update problem that I was having with WordPress!

This is where I first found this fix suggestion:
http://wordpress.org/support/topic/277858?replies=10

But a little more digging turned up this blog entry:
http://www.kmcgraphics.com/2009/06/11/installation-failed-fix-for-wordpress-2-8-upgrade/

I’m also sending in this post my e-mail just to see if it will work.

Edit: turns out it does, but not as well as I would like.