Debroglie's repository

anafcfweb

Pascal — Mon, 01 Mar 2010 14:10:38 +0000

I wrote a small script that plot a few graphs from fcf files:
Anafcfweb

The script is in alpha stage with some improvements needed. I do not store the fcf/cif file on the server. However, the eps/png/pdf generated files are stored in a temp folder not publicly accessible.

It’s written in pure php. The original script was in python but I ported it to php because of the poor perfomance of the cgi interface on Debroglie. I also have an opcode cache for php, so it’s much faster.

About the html part, the graphs are rendered with flot. Flot is a plotting library using canvas. I tweaked it a little bit so it gives better performance with the thousands of data points that requires the graphs. Canvas is part of HTML 5 so do not expect any support in Internet explorer. The script is using a compatibility layer called excanvas for IE but it is extremely slow…

Everything is not rendered in canvas, so export of the graph is not possible directly. For this purpose I am generating a picture from the server with gnuplot. There is also a CSV export of the coordinates.

The graphs are interactive, you can peak a reflection to show all the variables, modify the weights and filter the reflections.

Almost everything is done via javascript and the script heavily depends on jquery.

The sources are here : Anafcfweb svn.

Example with the normal probability plot

Planet, Platon, CCTBX

John — Wed, 24 Feb 2010 13:55:54 +0000

Ok, so the planet has stalled slightly because the simplepie feed catcher is running out of puff on the cron process and getting killed.

Platon has been updated and all good and there is now a new cctbx in the testing repo.

Enjoy

Planet Feed Crystallogaphy

John — Wed, 17 Feb 2010 13:03:21 +0000

Ok, so Pascal’s great idea and an idle lunch have seen me install a feed aggregator on the forum. Now this post will let me know if it is updating automatically! How cool is that?

Platon

John — Mon, 15 Feb 2010 10:51:03 +0000

A new platon is being uploaded as I type. Can you hear those electrons pinging about?

Enjoy!

Rss feeds, planet

Pascal — Wed, 10 Feb 2010 14:09:55 +0000

I am looking around if a planet gathering rss feeds about crystallography or chemistry can be interesting. However, by looking at the websites of the software distributed here, none proposed rss feeds.

So, in the hypothesis I’ll set up a planet. Which feeds can I used? If you know any feeds that can be interesting, post it in a comment. If there is enough material, I’ll think about it.

PS: for those you don’t know what a planet is: in online media, Planet is a feed aggregator application designed to collect posts from the weblogs of members of an Internet community and display them on a single page. Here is an example: http://planet.fedoraproject.org/.

Fancy

John — Tue, 09 Feb 2010 13:27:32 +0000

We must all congratulate Pascal on the fancy new look to debroglie.net, very nice.

There is a slight delay on the platon update as Ton has appeared to have altered the file structure a bit which I will have to update the SPEC to accommodate. Expect something this week though.

Fox 1.9.0.2

Pascal — Mon, 01 Feb 2010 12:14:16 +0000

The new version of Fox is available for update (el5, fc10, fc11 and fc12). The package name is objcryst-fox as fox is already taken.

Debroglie downtime

Pascal — Wed, 27 Jan 2010 08:54:43 +0000

Debroglie had a hardware failure yesterday evening. The motherboard has been changed and Debroglie is running again. So far I have not seen any data loss.

http://trac.debroglie.net/trac/wiki/journal

f3d update

Pascal — Thu, 21 Jan 2010 22:04:33 +0000

f3d has been updated. It has now an entry in the menu and a dependence on htmlview has been added to handle the help pages.

The source from the rpm are different from the sources on the website. Sources on the original website will be updated.

Packages for centos are also available. The rpms will remain in the testing branch for a while. You need to activate the testing repository to install it : yum --enablerepo=debroglie-test install f3d

Platon

John — Fri, 15 Jan 2010 10:37:29 +0000

Updated