18
02/06
Feeling horribly exhausted today, and generally unhappy with the proceedings of the day…but got a lot of things to do. Damn, I’ve got to do something and focus again.
15
02/06
03
02/06
Damn…
Programs have a tendency of developing bugs AFTER you are ready to run them for the main operation. It turns out the my sequon extractor was not extracting sequons within 20 residues of each other. Its simple enough to fix, but it turned up at the last moment.
Further, my comparer also had a small reporting glitch.
Sheesh…
01
02/06
Bytes and Bites
Wow…now I hadn’t done that in a long time. Putting together a couple of days work, it amounts to about 16 hours of coding hard. At first, I had idea about using existing programs and packages…but after a few hours of wasting time, it is apparent to me that you cannot lick other people’s sweat too much.
Anyhow, I have finally finished the job, and now I have programs that can
1) pattern-match and extract sequence fragments from any database
2) extract sequence fragments based on annotations in the database, and
3) given two databases A and B generate a third database , C, such that C= B – (A ∩ B)
Pretty soon, the package will be available for use, at least the pattern and annotation matchers. I don’t know about the third option because it is very computer intensive (50hrs for 20K sequences on 2.66 MHz Pentium). Personally, I plan to run it on the 4 dual-core Xeon cluster in the lab. Let us see how that goes…
More from that the “that’s gross” files, I happen to be bit again , by some unknown bug, in a very wierd place. The apparition that has developed, has swollen, bled and itched all at the same time. Guess what , I am going to show you what it is … HA! Too late to turn back now..
Yep, the Black thing you see is clotted blood/scab.