Re: does anyone know a substitution for CrystalMaker
From Carlo Segre on Sept.8th many of these work better with large molecules, such as proteins. Yes, I know this, and I've used some softwares. Avogadro is probably a better choice for what you describe. It imports many different kinds of formats. Yes, I think so. I also use Ghemical but it does not have the ability to visualize polyhedra and it has a sort of funky interface. Well, I used Ghemical for teaching organic chemistry, it's very useful in organic molecular struction. And I think you are right, the interface is not convenient. From Xu Benda on Sept.7th I use gcrystal, which is very easy to use and good for paedagogical purpose. As a student I've used that for my solid state physics class. Yes, thank you, and I'd like to try this software. From Andreas Tille on Sept.7th I would like to remember that there is a good overview about the chemistry related packages at http://cdd.alioth.debian.org/edu/tasks/chemistry.html which are listed as relevent for Debian Edu. The list of Debian Science is much more complete: http://cdd.alioth.debian.org/science/tasks/chemistry.html I have an advice, remove this link http://cdd.alioth.debian.org/edu/tasks/chemistry.html because I think it's spare. Why we need this if there is a much more complete source in http://cdd.alioth.debian.org/science/tasks/chemistry.html? Or maybe merge these two will be another good idea. At last, I deeply appreciate your helps! Thank you all! -- Regards, G -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: does anyone know a substitution for CrystalMaker
On Wed, 10 Sep 2008, Ji ZhengYu wrote: I have an advice, remove this link http://cdd.alioth.debian.org/edu/tasks/chemistry.html ^^^ because I think it's spare. Why we need this if there is a much more complete source in http://cdd.alioth.debian.org/science/tasks/chemistry.html? ^^^ Edu != Science so the software is collected under different aspects. Or maybe merge these two will be another good idea. No. As far as I know the later one lists *all* chemistry related packages in Debian while Edu lists the subset that people on the debian-edu list regarded relevant for education. It is not me who did this selection but as I mentioned in previous postings in this thread I asked for a revision of the edu packages. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: does anyone know a substitution for CrystalMaker
On Sun, 7 Sep 2008, Carlo Segre wrote: As someone else mentioned, Jmol is a good choice too but there was only an unoffical Debian package which is 3 years out of date and not on the http://debian.wgdd.de/debian site any longer. I do have that package if you are interested but I have not updated it at all. Well, in Debian Med we keep a record of jmol at http://debian-med.alioth.debian.org/tasks/bio.html#jmol I added this as prospective package to chemistry task of Debian Science - feel free to add it tho the corresponding Debian Edu task if you think it is an application for schools (or just tell me if you think it is worth mentioning - I volunteer to add it to the tasks file). Regarding packaging read the remark in the end of the description. It seems to feature the typical problems Java programs are featuring regarding inclusion of several jars that do not really belong to the project. So the source of the inofficial package is just there but might be of less help ... Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
does anyone know a substitution for CrystalMaker
Hi, As subject. I am looking for a software to substitute for CrystalMaker, any suggestion? I need this software to demo some structures when I teach students about crystal structure. Without demo, students usually have difficult to imagine the structure, such A4, A3, A6 stacking, or something like body centered cubic and so on. -- Regards, G -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: does anyone know a substitution for CrystalMaker
On Sun, Sep 7, 2008 at 11:09 AM, Ji ZhengYu [EMAIL PROTECTED] wrote: As subject. I am looking for a software to substitute for CrystalMaker, any suggestion? I need this software to demo some structures when I teach students about crystal structure. Without demo, students usually have difficult to imagine the structure, such A4, A3, A6 stacking, or something like body centered cubic and so on. Jmol has reasonably good crystal support. Alioth pkg-java or pkg-science should have the debian/ files, but it needs updating for openjdk/icedtea. Egon -- http://chem-bla-ics.blogspot.com/ -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: does anyone know a substitution for CrystalMaker
[Ji ZhengYu] As subject. I am looking for a software to substitute for CrystalMaker, any suggestion? I'm not quite sure what you are looking for, as I do not know CrystalMaker, but here are some proposals based on the education-chemistry task for visualizing molecules: http://viewmol.sourceforge.net/ http://www.umass.edu/microbio/rasmol/ http://easychem.sourceforge.net/ http://pymol.sourceforge.net/ http://www.uku.fi/~thassine/projects/ghemical/ http://gdis.seul.org/ http://www.chemicalgraphics.com/PovChem/ Perhaps one of these can do the job? Happy hacking, -- Petter Reinholdtsen -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: does anyone know a substitution for CrystalMaker
On Sun, 7 Sep 2008, Petter Reinholdtsen wrote: I'm not quite sure what you are looking for, as I do not know CrystalMaker, but here are some proposals based on the education-chemistry task for visualizing molecules: http://viewmol.sourceforge.net/ http://www.umass.edu/microbio/rasmol/ http://easychem.sourceforge.net/ http://pymol.sourceforge.net/ http://www.uku.fi/~thassine/projects/ghemical/ http://gdis.seul.org/ http://www.chemicalgraphics.com/PovChem/ I would like to remember that there is a good overview about the chemistry related packages at http://cdd.alioth.debian.org/edu/tasks/chemistry.html which are listed as relevent for Debian Edu. The list of Debian Science is much more complete: http://cdd.alioth.debian.org/science/tasks/chemistry.html I have no idea about the criteria which make a package fit for education but some review might be interesting (for instance there is a Debian packaged version of Avogadro which a hint was given to in this thread listed on Debian Science). If you know any other projects (packaged for Debian or not) which might complete this list, just share your knowledge here. I would volunteer to complete the list if somebody points to an interesting project. Kind regards Andreas. -- http://fam-tille.de -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: does anyone know a substitution for CrystalMaker
I use gcrystal, which is very easy to use and good for paedagogical purpose. As a student I've used that for my solid state physics class. Ji ZhengYu wrote: I need this software to demo some structures when I teach students about crystal structure. -- 续本达 Xu, Benda Academic Talent Program on Fundamental Science of Mathematics and Physics, Tsinghua University, Beijing, P.R.China http://learn.tsinghua.edu.cn:8080/2005012177/index.html http://alioth.debian.org/~heroxbd-guest/ -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
Re: does anyone know a substitution for CrystalMaker
Hi All On Sun, 7 Sep 2008, Petter Reinholdtsen wrote: [Ji ZhengYu] As subject. I am looking for a software to substitute for CrystalMaker, any suggestion? http://viewmol.sourceforge.net/ http://www.umass.edu/microbio/rasmol/ http://easychem.sourceforge.net/ http://pymol.sourceforge.net/ http://www.uku.fi/~thassine/projects/ghemical/ http://gdis.seul.org/ http://www.chemicalgraphics.com/PovChem/ many of these work better with large molecules, such as proteins. Avogadro is probably a better choice for what you describe. It imports many different kinds of formats. I also use Ghemical but it does not have the ability to visualize polyhedra and it has a sort of funky interface. Both of these are in Debian. As someone else mentioned, Jmol is a good choice too but there was only an unoffical Debian package which is 3 years out of date and not on the http://debian.wgdd.de/debian site any longer. I do have that package if you are interested but I have not updated it at all. Cheers, Carlo -- Carlo U. Segre -- Professor of Physics Associate Dean for Special Projects, Graduate College Illinois Institute of Technology Voice: 312.567.3498Fax: 312.567.3494 [EMAIL PROTECTED] http://www.iit.edu/~segre [EMAIL PROTECTED] -- To UNSUBSCRIBE, email to [EMAIL PROTECTED] with a subject of unsubscribe. Trouble? Contact [EMAIL PROTECTED]
