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An output file can be opened via "File/Open" menu item. When a file has been read, it is divided into separate elements presented in the Data Explorer (the hierarchical list at the left): individual geometries, vibrational modes and other. By clicking on the nodes of the list one can view individual geometries, vibrations from the file. There are five view modes for these elements: Image (picture of the molecule), Abstract (some conspectus of the element), Source (the text of the output file), Coord (Cartesian coordinates of the atoms in the molecule), Image/Abs. (split mode with picture and abstract). Image mode is the primary. Buttons and checkboxes on the panel at the left, which appear when clicking on the items of the list, allow one to visualize charges on atoms and other atomic properties, occupations and bond energies (checkboxes "Show atomic properties", "Show bond properties"), dipole moment (checkbox "Show dipole moment"), graphs with IR, Raman or electronic spectra or potential energy surface (buttons "View spectrum", "View scan graph"), show the directions of vibrational modes or forces on the nuclei (checkboxes "Show displacement vectors" for vibrations, "Show forces" for individual geometries), etc.
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Using molecule rendering possibilities:
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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);
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“拖曳”原子或沿键旋转碎片的例子
当“拖动”原子或执行其他结构修改时,任何几何参数都可以控制在图像上(见图5)。Chemcraft的界面允许人们轻松地改变任何原子的类型或插入/移除一个键。Chemcraft提供了快速获取Z矩阵的实用工具。Z矩阵是通过点击分子中的原子并一些附加信息来建立的(图7)。在使用这个工具之前,首先应该在Cartesian坐标中获得分子的结构。所有用于构建分子的上述工具都可用于此目的。
应用一组的几何参数
Z矩阵的可视化构造
Chemcraft可以调节分子中的原子坐标以应用特定的对称性(图8)。这个工具在研究中非常有用,因为对称分子比非对称分子计算得更快。
Chemcraft supports an interface for quick creation of sections of GAMESS-US input files with non-standard basis sets (fig. 4). The basis sets are extracted from their descriptions, which can be obtained at PNNL's webpage /forms/basisform.html). They can be also supplemented with additional gaussians specified by the user.
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