Please cite this website as:

Buzgar N., Apopei A. I., Buzatu A. (2009) - Romanian Database of Raman Spectroscopy (http://rdrs.uaic.ro)


PIGMENTS


MINERALS



EMAIL subscription


SPAFMSR

PNII - IDEI COD 2119/2008



Alexandru Ioan Cuza UniversityFaculty of Geography and Geology

Locations of visitors to this page

Why donate? If you use this site regularly and would like to help us, please consider donating a small sum.
All proceeds go to:
+ development of this website;
+ buy some minerals not available yet;
+ development of RDSS software;
+ buy some articles or books necessary for Raman study (interpretation).

Sir C. V. Raman: "I should live long, because I have not heard all the music I want to hear."




Raman Spectroscopy

Raman Spectroscopy

Blog | Tutorials | Software
08.6.10

How to insert Jmol applet in WordPress?


I finally figured out how to insert Jmol applet into WordPress. First of all I want to answer to this question: “What is Jmol?”

Jmol: an open-source Java viewer for chemical structures in 3D with features for chemicals, crystals, materials and biomolecules

If you want to embed Jmol script you need to follow some steps:

  • download Jmol software from here;
  • after you extract the archive downloaded from jmol website, upload all files to your webserver folder/location;
  • insert this code into post (in HTML [WYSIWYG] panel) click here to see the code

Where:


  • src="../../../jmol/Jmol.js" is the location of the Jmol.js, “../” it’s like up folder;
  • jmolInitialize("../../../jmol/"); is location folder of the all Jmol files;
  • jmolApplet([450, 300], applet width and height (in px). In this example: width = 450px and height = 300px;
  • load ../../../jmol/structures/co3.xml; location of your structure (.xml, .cif, .mol, .pdb, .mol2, xyz, xyz+vib, and much more);
  • background [xf7f7f7]; background HEX (where x = #).
  • Very important! Because you probably use a WordPress theme, copy the Jmol folder (with all files) in all “root” folders. Example: you have “http://yoursite/blog/wp-content/themes/theme_name/“, you need to put Jmol folder in root theme_name, themes, wp-content and blog folder. This trick is necessary for old posts/non-indexpage which contain Jmol applet(s).

CO3 vibration example:


I’m still working on this tutorial. For any question don’t hesitate to comment on this post.

Print This Post Print This Post | Tags: , , ,
| Posted in Blog, Raman Spectroscopy, Software, Tutorials | No Comments » | Share
05.30.10

Fix .txt Raman spectrum


Some Raman spectra (.txt format) can not be viewed properly (see below screenshot/image). How can you fix this minor bug? It’s very simple:


1. Open .txt Raman spectrum (select .txt Raman spectrum -> right click -> open with Notepad/Notepad++);

2. Remove header lines (words/rows that begin with ##);


Example:

##Title= Raman spectra of Anatase
##NAMES= Anatase
##CHEMISTRY= TiO2
##LOCALITY= Binnenthal - Elvetia


3. Remove footer lines (words/rows that begin with ##);


Example:

##END=



Important! The final Raman spectrum should contain only two columns of numbers.


Example:

3399.61      -0.519297
3397.15      30.5165
3394.69      11.5476
3392.22      20.0742
.......      .......


or


145.8416, 42.06689
146.3237, 26.87427
146.8058, 32.36987
147.2879, 75.71753
........, ........


4. Save the file (keep the same format – .txt)

5. And now open the Raman spectrum

Print This Post Print This Post | Tags: , , , , , , ,
| Posted in Tips, Tutorials | No Comments » | Share
05.16.10

Romanian Database of Raman Spectroscopy Fund


Why donate? If you use this site regularly and would like to help us, please consider donating a small sum.

All proceeds go to:
+ development of this website;
+ buy minerals not available in the “Mineralogy and Petrography Museum Grigore Cobălcescu” of “Alexandru Ioan Cuza” University, Iasi;
+ development of RDRS software;
+ buy some articles or books necessary for Raman study (interpretation).

If you decide to contribute, go to “About page” or click here. Thanks for your support!

RDRS team

Print This Post Print This Post | Tags: , , , ,
| Posted in Blog, Raman Spectroscopy, RDRS | No Comments » | Share
Page 1 of 512345