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关 键 词:Chemcraft软件安装教程
行 业:IT 软件 双机容错与集群软件
发布时间:2021-11-19
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Chemcraft对于Gamess用户
Chemcraft给Gamess-US输出文件提供了非常详细的可视化。文件中的下列数据可以以图形方式呈现:
原子坐标(对应于所有或对称的原子,如果在文件中呈现对应的表);
如果文件中给出了键阶分析,文件中的结合物显示在图像上(否则通过距离算法计算结合物);
能量梯度可以以指针的形式显示(图2);
不同的原子属性可以以标签的形式显示:Mulliken种群和电荷、自旋密度、价态;
键序(以标签的形式显示在结合物上);
分子轨道可视为等值面或彩色平面;
振动模式可以动画或以指针的形式(位移矢量)显示;
偶极矩可视为指针;
MO能量可以以数字形式显示。
The main capabilities of the program include:
- Rendering 3-dimensional pictures of molecules by atomic coordinates with the possibility to examine or modify any geometrical parameter in the molecule (distance, angle);
- Visualization of Gamess, Gaussian, NWChem, ADF, Molpro, Dalton, Jaguar, Orca, QChem output files: representation of individual geometries from files (optimized structure, geometry at each optimization step, etc.), animation of vibrational modes, graphical representation of gradient (forces on nuclei), visualization of molecular orbitals in form of isosurfaces or colored planes, visualization of vibrational or electronic (e.g., TDDFT) spectra, possibility to show SCF convergence graphs, and some other features;
The "Tools/Build Z-matrix/" menu item allows one to obtain a Z-matrix in text format by clicking atoms in current structure and specifying some additional information (e.g., whether current parameter is an angle or a dihedral). Before using this utility one should preliminarily obtain the structure of the molecule in Cartesian coordinates. For more details, see here
分子结构合并
Chemcraft支持一组用于构造分子结构的工具,这些工具可用于准备计算或其他目的的初始猜测。
合并多个结构
在使用该实用程序之前,应该选择几个原子以大程度地彼此靠近(图9这些原子标记为白色)。除了这个特性,Chemcraft还可以计算两个分子之间的均方根差值。
分子绘制的可能性
Chemcraft生成高质量的32位分子图像。它被设计成一个用于创建发布就绪图像的程序,不需要任何额外的修改。图片可以很容易地在原子/键和附加对象,如标签和线条。Chemcraft包含一个标准显示方案的。每个方案代表一组定义分子外观的参数:照明参数、单个原子和键的颜色和大小等。图10说明了四种方案。Chemcraft允许用户更个方案的参数,或者将自己的方案添加到中。Chemcraft的图形引擎不需要任何图形加速或额外的图形库。被很好的优化并提供,并提供高渲染速度,即使在过时的电脑。
Chemcraft for Gaussian users
We recommend to type #P GFINPUT POP(FULL, NBO) in Gaussian input files for visualization of Gaussian outputs via Chemcraft. #P option enables extended printout; GFINPUT option enables printout of basis set information (description of primitives in basis set), while POP(FULL) enables printout of all molecular orbitals coefficients (POP(REGULAR) can be also used). The latter two keywords allow Chemcraft to visualize molecular orbitals. POP(NBO) enables printout of Natural Bond Orbitals analysis, in which the bonds in the molecule are computed. All these keywords are advisable but not necessary. As for GAMESS files, different data from the file can be visualized: forces
To examine the value of a geometrical parameter (distance, angle, dihedral), one should select 2, 3 or 4 respective atoms by left-clicking: the value will be shown in textbox at the bottom. For selection of new atoms, old atoms must be first deselected by right-click. The button "Show" (to the right of the textbox) displays the value of the current parameter in the molecule's image. The chosen geometrical parameter can be altered by entering a new value in the textbox and pressing the "Set" button. If the button is pressed, the coordinates of only last selected atom will change; if the button is pressed, first and last selected atoms will move symmetrically. Other atoms bonded to the selected ones will move along with them; if that is undesirable, one should manually delete bonds or add new ones via selecting pairs of atoms and pressing Ctrl+B. For additional details on such geometry modifications, see
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