Ubuntu 9.10 WM quirks

September 16, 2009 at 2:17 am (review, software, tips, ubuntu) (, , , )

The quirks of my spanking new Ubuntu install is driving me nuts..

I found solutions online that do not seem to work!

1) I have to alt-tab twice to change windows (the first just shows the popup)

tried

http://ubuntuforums.org/archive/index.php/t-490238.html

http://ubuntuforums.org/archive/index.php/t-570357.html

but it seems that using compositing or adding visual effects solves the problem!

2) Alt_R doesn’t work! its a special mod key but xmodmap doesn’t help!

Any solutions is appreciated!

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prerelease version of the Adobe® Flash® Player 10 software for Solaris and 64-bit Linux platforms.

December 18, 2008 at 11:10 am (review, software, ubuntu) (, , , )

http://labs.adobe.com/downloads/flashplayer10.html

Get it while its hot! 🙂

will post experiences on an Ubuntu box later

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What has Bettas got to do with Programming?

October 30, 2008 at 10:34 am (review) (, , )

A programmer’s view of the Universe, part 1: The fish

I write a column for computer programmers called “Stevey’s Blog Rants.” It’s basically a magazine column — I publish to it about once a month. The average length of my articles is about 12 pages, although they can range anywhere from 4 to 40 pages, depending on how I’m feeling. But for precedent, don’t think blogs: think of Reader’s Digest. The blog format sets the wrong expectations.
Kevin: thought provoking blog post!

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Do you oovoo?

September 5, 2008 at 3:21 pm (review, software)

Was introduced to this video conferencing software by a friend. Its the first that I know of that can include up to 6 people in a video conference call. Definitely cool and possibly more environmentally friendly than flying overseas for just a meeting.

Cooler still its available for Win and Mac..but what’s uncool is that it isn’t avail for Linux (yet) help me pester them for a linux version will you?

Check it out!

http://www.oovoo.com/

ooVoo is the next evolution in online communication — a remarkably easy way to have a face-to-face video chat with friends, family or colleagues, no matter where they are in the world.

ooVoo Video Chat is remarkably easy to use: easy to download, easy to install, and best of all:
it’s FREE!

ooVoo…now you see!

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Odds of losing ur Lab notebook vs ur Enotebook

September 5, 2008 at 9:15 am (bioinformatics, review, tips) (, )

interesting cross discussions at Saunder’s blog about archiving your lab notebook here

and another person’s take on it which kinda reflects my own opinions .. my previous notebook was a word document it certainly is more helpful cos I dun have to flip pages but jus do a crtl-F

interestingly they both didn’t talk about the odds of having the information lost due to spilled reagents or gasp ur lab notebook catching fire. I don’t think a dog would wanna eat that dirty notebook though. But i think that in some sense an E-notebook is more liable to have data loss.

of course there are safeguards to have to prevent the data loss due to harddisk failures. But I think along the way from the bench to the computer, its likely that one forgets to insert some data..

hmm incoherent? sorry brain is abit scrambled trying to figure out ensembl annotation pipeline. anyway hope you all have a nice weekend! heh next weekend i be travelling down to Cambridge Hinxton for Ensembl User Meeting .. hopefully I get my answers!

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Lincoln D. Stein’s new review paper

August 21, 2008 at 6:10 am (bioinformatics, review)

just saw this in my mailbox..

Nature Reviews Genetics 9, 678-688 (September 2008) | doi:10.1038/nrg2414

Towards a cyberinfrastructure for the biological sciences: progress, visions and challenges

Lincoln D. Stein

there’s even a companion wiki page for an article in Nature Reviews Genetics by Lincoln Stein:

Cool part is that it’s free to read for a month for logged in nature.com users (you can use your Nature Network credentials).

I think he definitely hit it on the nail when he said “Much of the data is ‘out there’, but it can be difficult to find and challenging to use effectively once found.”

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Comment: Putting evolutionary theory into practice – opinion – 06 May 2008 – New Scientist

May 7, 2008 at 8:03 am (evolution, journal, review) (, , )

fascinating thoughts and a new journal! Didn’t know there can be a field called applied evolution. although I have to disagree that it has only surfaced recently on how fast evolution can be.

One of the earliest research I have read about genetics and applied evol pressure is done on guppies size variation in Trinidad due to predator pressure.

how ‘fast’ evolution proceeds is in most parts due to the lifespan and reproductive patterns of the organism in question.

link

— Nesse says that progress is being hampered by the fact that many medics still think of the body as a machine designed by an engineer, when in fact it is a “bundle of compromises … designed to maximise reproduction, not health”. There is no question about the importance of applied evolution. The trouble is, if biologists themselves are only just waking up to how relevant and crucial evolution can be, what hope is there of educating the leaders and policy makers who need to understand and act upon this research? Not much, I fear.

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Lest you think annotation is easy

April 17, 2008 at 9:53 am (bioinformatics, genome, review) ()

Fungal Genomes and Comparative GenomicsLest you think annotation is easyApr 13
I love the title of this post. And I totally agree.. gene annotation is anything but easy..
keeping track of which prediction programs and the rationale behind the annotation (manual or automated) is one thing the author didn’t mention.

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7 bioinformatics secrets every biologist should know

March 28, 2008 at 5:26 pm (bioinformatics, opensource, review, software, tips)

see this lecture in youtube!

I am already using some of the stuff mentioned in here. I might even add a few more to the list..  but it seems like a cool lecture for biologists.

http://www.mozilla.org/
http://biobar.mozdev.org/
http://www.google.com/intl/en/options/
https://addons.mozilla.org/en-US/firefox/addon/748
http://www.ihop-net.org/UniPub/iHOP/
http://bioinfo.icapture.ubc.ca/iHOPerator/
http://gaggle.systemsbiology.org/docs/
http://apropos.mcw.edu/
http://string.embl.de/

consolidated links list from computational biology blog

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Consolidated quotes on junk DNA aka Non coding sequences

March 11, 2008 at 11:20 am (evolution, genome, junk dna, review) (, , , , , , )

check out this compilation of quotes on the genomicron blog

here’s a snapshot dated today his post will be updated. Go back to his post for updates!

To facilitate access to the series of posts on what has been said in the literature about noncoding DNA and its potential functions, I will maintain an updated list here.

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