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PRINSAS 2.0: a Python-based graphical user interface tool for fitting polydisperse spherical pore models in small-angle scattering analysis of porous materials. PRINSAS 2.0:一个基于python的图形用户界面工具,用于拟合多孔材料小角散射分析中的多分散球形孔隙模型。
IF 2.8 3区 材料科学 Q1 Biochemistry, Genetics and Molecular Biology Pub Date : 2025-07-02 eCollection Date: 2025-08-01 DOI: 10.1107/S1600576725004315
Phung Nhu Hao Vu, Andrzej P Radlinski, Tomasz Blach, John Daniels, Klaus Regenauer-Lieb

Despite the growing use of small- and ultra-small-angle scattering (SAS/USAS) across various fields, data processing remains challenging due to the complexity of SAS analysis and the limited accessibility of existing analysis software. These issues are addressed with PRINSAS 2.0, a portable Python-based tool with an intuitive graphical user interface. It enables efficient fitting of the polydisperse spherical pore model to SAS data and is specifically designed for porous materials often encountered in geoscience. This paper outlines the scientific and mathematical foundations of the software, along with its numerical implementation, to provide users with theoretical context and to support future development. The software was tested and validated using data from a range of geological and engineered porous samples measured at various neutron scattering facilities, ensuring broad compatibility. Additional validation using synthetic data sets, along with comparisons with existing pore size distribution fitting tools, confirmed its robustness in recovering predefined pore size distributions. PRINSAS 2.0 offers wide accessibility while ensuring that the fit results adhere closely to the underlying theoretical model, making it a practical tool for non-specialist users of SAS techniques. It also integrates seamlessly with larger Python-based SAS analysis frameworks, while remaining fully functional as a standalone application.

尽管在各个领域越来越多地使用小角和超小角散射(SAS/USAS),但由于SAS分析的复杂性和现有分析软件的可访问性有限,数据处理仍然具有挑战性。PRINSAS 2.0解决了这些问题,PRINSAS 2.0是一个可移植的基于python的工具,具有直观的图形用户界面。它可以有效地将多分散球形孔隙模型拟合到SAS数据中,并且是专门为地球科学中经常遇到的多孔材料设计的。本文概述了该软件的科学和数学基础,以及它的数值实现,为用户提供理论背景并支持未来的发展。该软件使用了在不同中子散射设施测量的一系列地质和工程多孔样品的数据进行了测试和验证,确保了广泛的兼容性。使用合成数据集进行的额外验证,以及与现有孔径分布拟合工具的比较,证实了其在恢复预定义孔径分布方面的稳健性。PRINSAS 2.0提供了广泛的可访问性,同时确保拟合结果与基础理论模型密切相关,使其成为SAS技术非专业用户的实用工具。它还与更大的基于python的SAS分析框架无缝集成,同时保持作为独立应用程序的完整功能。
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引用次数: 0
A model for out-of-phase boundary induced X-ray diffraction peak profile changes in Aurivillius oxide thin films. 非相边界诱导氧化金膜x射线衍射峰谱变化的模型。
IF 2.8 3区 材料科学 Q1 Biochemistry, Genetics and Molecular Biology Pub Date : 2025-07-02 eCollection Date: 2025-08-01 DOI: 10.1107/S1600576725004091
Roger W Whatmore, Debismita Dutta, Lynette Keeney

Layered crystal structures, such as the Ruddlesden-Popper and Aurivillius families of layered perovskites, have long been studied for their diverse range of functionalities. The Aurivillius family has been extensively studied for its ferroelectric properties and potential applications in various fields, including multiferroic memories. A new analytical model is presented here that explains how out-of-phase boundaries (OPBs) in epitaxial thin films of layered materials affect X-ray diffraction (XRD) peak profiles. This model predicts which diffraction peaks will split and the degree of splitting in terms of simple physical parameters that describe the nanostructure of the OPBs, specifically the structural displacement perpendicular to the layers when moving across the OPB, the angle made by the OPB at the thin-film-substrate interface, and the OPB periodicity and its statistical distribution. The model was applied to epitaxial thin films of two Aurivillius oxides, SrBi2(Ta,Nb)O9 (SBTN) and Bi4Ti3O12 (BiT), and its predictions were compared with experimental XRD data for these materials. The results showed good agreement between the predicted and observed peak splitting as a function of OPB periodicity for SBTN and for an XRD profile taken from a BiT thin film containing a well characterized distribution of OPBs. These results have proven the model's validity and accuracy. The model provides a new framework for analysing and characterizing this class of defect structures in layered systems containing OPBs.

层状晶体结构,如Ruddlesden-Popper和Aurivillius家族的层状钙钛矿,因其多种功能而长期被研究。Aurivillius家族因其铁电特性和在包括多铁记忆在内的各个领域的潜在应用而被广泛研究。本文提出了一种新的分析模型来解释层状材料外延薄膜中的非相边界(OPBs)对x射线衍射(XRD)峰谱的影响。该模型根据描述OPB纳米结构的简单物理参数,特别是在OPB上移动时垂直于层的结构位移,OPB在薄膜-衬底界面处的角度,以及OPB的周期性及其统计分布,预测了衍射峰的分裂和分裂程度。将该模型应用于两种Aurivillius氧化物SrBi2(Ta,Nb)O9 (SBTN)和Bi4Ti3O12 (BiT)的外延薄膜,并将其预测结果与这些材料的实验XRD数据进行了比较。结果表明,SBTN的预测峰分裂与观测峰分裂是OPB周期性的函数,并且从含有OPB分布良好的BiT薄膜上获得的XRD谱图与预测峰分裂非常吻合。这些结果证明了模型的有效性和准确性。该模型为含opb的分层系统中这类缺陷结构的分析和表征提供了一个新的框架。
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引用次数: 0
Two metrics for quantifying systematic errors in diffraction experiments: systematic errors in the variance of the observed intensities and agreement factor gap. 量化衍射实验系统误差的两个指标:观测强度方差的系统误差和一致因子间隙。
IF 2.8 3区 材料科学 Q1 Biochemistry, Genetics and Molecular Biology Pub Date : 2025-06-20 eCollection Date: 2025-08-01 DOI: 10.1107/S1600576725004376
Julian Henn

The increase in the weighted agreement factor due to systematic errors in single-crystal X-ray and neutron diffraction experiments can be quantified precisely, provided the estimated standard uncertainties of the observed intensities, s.u.(I obs), are sufficiently accurate. The increase in the weighted agreement factor quantifies the 'costs' of the systematic errors. This is achieved by comparison with the lowest possible weighted agreement factor for the specific data set. Application to 314 published data sets from inorganic, metal-organic and organic compounds shows that systematic errors increase the weighted agreement factor by a surprisingly large factor of g = 3.31 (or more) in 50% of the small-molecule data sets from the sample. Examples of twinning, disorder, neglect of bonding densities and low-energy contamination are taken from the literature and examined with respect to the increase in the weighted agreement factor, which is typically less than three. The large value g = 3.31 for the supposedly simple case of rather small molecules, as opposed to macromolecules, is interpreted as a warning sign that there are not only the expected remaining systematic errors, like not-modelled disorder, unrecognized twinning or neglect of bonding electrons or similar errors, but additionally a common systematic error of insufficiently accurate s.u.(I obs). Inadequate s.u.(I obs) may not just compromise the model parameters and model parameter errors; they are also a threat to the whole data quality evaluation procedure that relies crucially on adequate s.u.(I obs).

单晶x射线和中子衍射实验中由于系统误差引起的加权一致因子的增加可以精确地量化,只要观测强度的估计标准不确定度s.u (I obs)足够精确。加权一致系数的增加量化了系统错误的“成本”。这是通过与特定数据集的最低可能加权一致因子进行比较来实现的。对314个已发表的来自无机、金属有机和有机化合物的数据集的应用表明,在样本中50%的小分子数据集中,系统误差将加权一致因子增加了惊人的大因子g = 3.31(或更多)。孪生,无序,忽视键密度和低能量污染的例子取自文献,并检查了加权一致因子的增加,这通常小于3。对于相对于大分子来说,相对较小的分子来说,g = 3.31的大值被解释为一个警告信号,即不仅存在预期的系统误差,如未建模的无序、未识别的孪生或忽略成键电子或类似的误差,而且还存在不足够精确的s.u (I obs)的常见系统误差。不充分的s.u (I obs)不仅会损害模型参数和模型参数误差;它们也对整个数据质量评估程序构成威胁,该程序至关重要地依赖于足够的s.u (I obs)。
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引用次数: 0
Structure refinement and anisotropic atomic displacement parameters of 1M Illite: Rietveld and pair distribution function analysis using synchrotron X-ray radiation. 1M伊利石的结构精化和各向异性原子位移参数:Rietveld和同步x射线辐射对分布函数分析。
IF 2.8 3区 材料科学 Q1 Biochemistry, Genetics and Molecular Biology Pub Date : 2025-06-20 eCollection Date: 2025-08-01 DOI: 10.1107/S1600576725004170
Seungyeol Lee

Illite, a widespread clay mineral, plays a pivotal role in geological processes, notably as an indicator in diagenetic and hydro-thermal alteration environments, and possesses significant industrial relevance in applications including ceramics, construction and catalysis. However, challenges including its nanoscale crystallinity, structural disorder and frequent interstratification with other clay minerals have hindered detailed structural characterization using conventional X-ray diffraction (XRD) techniques. This study employs integrated synchrotron XRD and pair distribution function (PDF) analysis to elucidate the crystal structure of the 1M illite polytype, yielding the first determination of its anisotropic atomic displacement parameters (U aniso). These U aniso parameters provide critical insights into atomic dynamics and static disorder within the structure, enabling a more refined understanding of structure-property relationships. This integrated approach, combining synchrotron XRD, Rietveld refinement and PDF analysis, yields a comprehensive structural characterization, capturing both average crystallographic and local atomic arrangements. Considering illite's widespread geological occurrence and industrial importance, this high-precision structural dataset, especially the determined U aniso values, provides a crucial benchmark for future modeling and simulation efforts targeting accurate prediction of its physicochemical behavior.

伊利石是一种广泛存在的粘土矿物,在地质过程中起着关键作用,特别是作为成岩和热液蚀变环境的指示物,在陶瓷、建筑和催化等领域具有重要的工业应用价值。然而,其纳米级结晶度、结构紊乱以及与其他粘土矿物的频繁互层等挑战阻碍了使用常规x射线衍射(XRD)技术进行详细的结构表征。本研究采用集成同步加速器XRD和对分布函数(PDF)分析阐明了1M伊利石多型的晶体结构,首次确定了其各向异性原子位移参数(U aniso)。这些U - iso参数提供了对结构内原子动力学和静态无序的关键见解,使人们能够更精确地理解结构-性质关系。这种综合方法结合了同步加速器XRD、Rietveld细化和PDF分析,产生了全面的结构表征,捕获了平均晶体学和局部原子排列。考虑到伊利石广泛的地质分布和工业重要性,这个高精度的结构数据集,特别是确定的U aniso值,为未来的建模和模拟工作提供了重要的基准,目标是准确预测其物理化学行为。
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引用次数: 0
Desmearing small-angle scattering data by central moment expansions of instrument resolution. 利用仪器分辨率的中心矩展开对小角散射数据进行分解。
IF 2.8 3区 材料科学 Q1 Biochemistry, Genetics and Molecular Biology Pub Date : 2025-06-20 eCollection Date: 2025-08-01 DOI: 10.1107/S1600576725004212
Guan-Rong Huang, Lionel Porcar, Yuya Shinohara, Christoph U Wildgruber, Chi-Huan Tung, Changwoo Do, Wei-Ren Chen

This study introduces an enhanced numerical technique tailored specifically for refining 1D small-angle scattering (SAS) intensity profiles affected by smearing. Our primary objective is to address the resolution blurring commonly encountered in SAS data, particularly in systems with clearly defined correlation peaks whose spread aligns with the width of the resolution function at corresponding Q positions. Unlike previous approaches that expanded the SAS intensity using central moment expansion, the new method focuses on expanding the resolution function itself, thus eliminating artificial oscillations observed in smeared spectra due to limitations inherent in our earlier algorithm. This method is straightforward to implement, computationally efficient and consistently performs well in numerical benchmarking. To illustrate its effectiveness, we present a case study of a lamellar phase characterized by distinct peaks in its small-angle neutron scattering intensities.

本研究介绍了一种专门用于细化受涂抹影响的一维小角散射(SAS)强度分布图的增强型数值技术。我们的主要目标是解决SAS数据中常见的分辨率模糊问题,特别是在具有明确定义的相关峰的系统中,其扩展与相应Q位置的分辨率函数的宽度一致。与先前使用中心矩展开扩展SAS强度的方法不同,新方法侧重于扩展分辨率函数本身,从而消除了由于我们先前算法固有的局限性而在涂抹光谱中观察到的人为振荡。该方法实现简单,计算效率高,在数值基准测试中始终表现良好。为了说明它的有效性,我们提出了一个具有明显的小角中子散射强度峰特征的片层相的案例研究。
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引用次数: 0
How X-ray dark-field imaging relates to small-angle X-ray scattering measurements. x射线暗场成像与小角度x射线散射测量的关系。
IF 2.8 3区 材料科学 Q1 Biochemistry, Genetics and Molecular Biology Pub Date : 2025-06-20 eCollection Date: 2025-08-01 DOI: 10.1107/S1600576725004017
Clara Magnin, Manuel Fernández Martínez, Dan Mihai Cenda, Blandine Lantz, Scott Barton, Bertrand Faure, Emmanuel Brun

Dark-field (DF) imaging is a recent X-ray imaging modality which is promising because it gives access to information not resolved in conventional transmission X-ray imaging. The DF technique was first introduced as a loss of visibility of the grating interferometry modulations. DF signal is now measured with all the different X-ray phase contrast setups such as beam tracking or modulation-based imaging. Using a dedicated setup [Magnin et al. (2023). Opt. Lett. 48, 5839-5842], we present in the present article combined measurements of small-angle X-ray scattering and DF signal on the same material. We confirm that DF imaging is sensitive to multiple refraction from a sample, as can be found in the literature on lung imaging, but we show that the DF signal is also sensitive to scattering events. Finally, we measure a porous membrane that creates both types of signal (scattering and refraction), showing that, contrary to existing models, it is difficult to be quantitative about DF.

暗场成像(DF)是一种新兴的x射线成像方式,因为它可以获得传统透射x射线成像无法解决的信息,因此具有广阔的应用前景。DF技术最初是作为光栅干涉调制的可见性损失而引入的。DF信号现在用所有不同的x射线相位对比装置测量,如光束跟踪或基于调制的成像。使用专用设置[Magnin et al.(2023)]。光学学报,48,5839-5842],我们在本文中提出了对同一材料的小角x射线散射和DF信号的综合测量。我们证实DF成像对样本的多次折射敏感,这可以在肺成像的文献中找到,但我们表明DF信号对散射事件也很敏感。最后,我们测量了一种产生两种类型信号(散射和折射)的多孔膜,表明与现有模型相反,很难对DF进行定量。
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引用次数: 0
Three-point bending behavior of individual ZnO nanowires studied by in situ Laue microdiffraction. 用原位劳埃微衍射研究了ZnO纳米线的三点弯曲行为。
IF 2.8 3区 材料科学 Q1 Biochemistry, Genetics and Molecular Biology Pub Date : 2025-06-16 eCollection Date: 2025-08-01 DOI: 10.1107/S1600576725003668
Soufiane Saïdi, Michael Texier, Shruti Sharma, Gustavo Ardila, Céline Ternon, Jean-Sébastien Micha, Stéphanie Escoubas, Olivier Thomas, Thomas W Cornelius

The mechanical behavior of piezoelectric semiconductor ZnO nanowires was studied in three-point bending configuration using the custom-built atomic force microscope SFINX coupled with in situ Laue microdiffraction. Besides bending, torsion of the nanowires was shown during mechanical loading. A fracture strength of up to 3 GPa was demonstrated, which is about one order of magnitude higher than that for bulk ZnO. In the case of a piezoelectric material like ZnO, this fracture strength represents the maximum elastic strain that could eventually be converted into electrical energy by the piezoelectric effect. The significantly increased fracture strength found for nanowires compared with bulk ZnO thus offers increased energy-harvesting potential from material flexing. While bulk ZnO is a brittle material, plasticity with the storage of dislocations in the basal plane was shown in the three-point bent ZnO nanowires.

利用自制的原子力显微镜SFINX结合原位劳埃微衍射,研究了压电半导体ZnO纳米线在三点弯曲构型下的力学行为。除了弯曲外,纳米线在机械加载过程中还出现了扭转。断裂强度高达3gpa,比体ZnO的断裂强度高一个数量级。对于像ZnO这样的压电材料,断裂强度代表了通过压电效应最终可以转化为电能的最大弹性应变。与体积ZnO相比,纳米线的断裂强度显著增加,因此可以从材料弯曲中获得更高的能量收集潜力。体ZnO是一种脆性材料,而三点弯曲ZnO纳米线则表现出基底面位错存储的可塑性。
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引用次数: 0
Incorporating the direct derivation method and molecular scattering power method into the Rietveld quantitative phase analysis routine in TOPAS. 将直接推导法和分子散射功率法引入到TOPAS的Rietveld定量相分析程序中。
IF 2.8 3区 材料科学 Q1 Biochemistry, Genetics and Molecular Biology Pub Date : 2025-06-16 eCollection Date: 2025-08-01 DOI: 10.1107/S1600576725004054
Xiaodong Wang, Henry Spratt

The equations of the direct derivation method (DDM) and the unit-cell scattering power method are reviewed in this report. Their relationships and connections to the conventional Rietveld quantitative phase analysis (QPA) are revealed, leading to the development of the Ck -corrected DDM and the molecular scattering power (MSP) method. Both methods can be seamlessly integrated into the conventional Rietveld QPA routine as hybrid QPA, i.e. they enable fitting phases of partially or no known crystal structure simultaneously with conventional crystal structure modelling of other known crystalline phases. The accuracies of these hybrid QPA methods are evaluated using a calculated X-ray diffraction pattern for a mixture, the IUCr round robin CPD-1 dataset and synthetic mixtures of disordered source clay minerals (kaolinite KGa-2, chlorite CCa-2) with corundum, using both Launch Mode and Graphical User Interface (GUI) Mode of the TOPAS software. Although the accuracies of these hybrid QPA methods are slightly lower than that of conventional Rietveld QPA, their absolute deviations from weighed percentages are scarcely larger than 3 wt%. Compared with the original DDM, the Ck correction enhances QPA accuracy, particularly for mixtures containing phases of large differences in average atomic number. An advantage over the original unit-cell scattering power method is that the proposed MSP method eliminates the need to know the lattice parameters, unit-cell volume or number of molecules in the unit cell.

本文综述了直接推导法(DDM)和单元散射功率法的方程。揭示了它们与传统Rietveld定量相分析(QPA)的关系和联系,从而导致了Ck校正DDM和分子散射功率(MSP)方法的发展。这两种方法都可以作为混合QPA无缝集成到传统的Rietveld QPA程序中,即它们可以同时拟合部分或未知晶体结构的相与其他已知晶体相的传统晶体结构建模。使用TOPAS软件的启动模式和图形用户界面(GUI)模式,利用计算的混合物x射线衍射图、IUCr循环CPD-1数据集和无序源粘土矿物(高岭石KGa-2、绿泥石CCa-2)与刚玉的合成混合物,对这些混合QPA方法的准确性进行了评估。虽然这些混合QPA方法的准确性略低于传统的Rietveld QPA方法,但它们与加权百分比的绝对偏差几乎不大于3wt %。与原始DDM相比,Ck校正提高了QPA精度,特别是对于含有平均原子序数差异较大的相的混合物。与原始的单胞散射功率法相比,MSP方法的一个优点是不需要知道晶格参数、单胞体积或单胞中的分子数。
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引用次数: 0
Pydidas: a tool for automated X-ray diffraction data analysis. 自动x射线衍射数据分析工具。
IF 2.8 3区 材料科学 Q1 Biochemistry, Genetics and Molecular Biology Pub Date : 2025-06-16 eCollection Date: 2025-08-01 DOI: 10.1107/S160057672500398X
Malte Storm, Peter Staron, Christina Krywka

The processing and analysis of X-ray diffraction (XRD) data at synchrotrons is often left to the user groups, which limits the user base to groups with a background in analyzing XRD data. Pydidas is a new Python package for processing XRD data. It provides an easy and intuitive interface and versatile processing options with the aim of being accessible to non-experts in XRD analysis. A graphical user interface (GUI) allows users to perform the full pipeline of data browsing, experiment calibration, workflow setup, processing and visualization in a single tool. In addition, pydidas' logic is decoupled from the GUI and it can be fully used from within scripts or embedded into other processing pipelines. The pydidas processing pipeline is assembled from individual plugins which perform specific processing steps. This modular design allows for very versatile pipelines covering a wide range of applications. To improve the usability even further, custom plugins can be integrated in the pydidas workflow to allow specialized processing steps.

同步加速器x射线衍射(XRD)数据的处理和分析通常留给用户群体,这将用户群体限制在具有分析XRD数据背景的群体中。Pydidas是一个新的用于处理XRD数据的Python包。它提供了一个简单直观的界面和多功能的处理选项,目的是在XRD分析的非专家访问。图形用户界面(GUI)允许用户在单个工具中执行数据浏览,实验校准,工作流程设置,处理和可视化的完整管道。此外,pydidas的逻辑与GUI解耦,可以在脚本中完全使用,也可以嵌入到其他处理管道中。pydidas处理管道由执行特定处理步骤的单个插件组装而成。这种模块化设计允许非常通用的管道覆盖广泛的应用。为了进一步提高可用性,可以将自定义插件集成到pydidas工作流中,以允许专门的处理步骤。
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引用次数: 0
Comparison of time-of-flight and MIEZE neutron spectroscopy of H2O. H2O的飞行时间和MIEZE中子能谱的比较。
IF 2.8 3区 材料科学 Q1 Biochemistry, Genetics and Molecular Biology Pub Date : 2025-06-16 eCollection Date: 2025-08-01 DOI: 10.1107/S1600576725003620
Lukas Beddrich, Johanna K Jochum, Philipp Bender, Leonie Spitz, Andreas Wendl, Christian Franz, Sebastian Busch, Fanni Juranyi, Christian Pfleiderer, Olaf Soltwedel

We report a comparison of modulation of intensity with zero effort (MIEZE), a neutron spin-echo technique, and neutron time-of-flight (ToF) spectroscopy, a conventional neutron scattering method. The evaluation of the respective recorded signals, which can be described by the intermediate scattering function I(Q, τ) (MIEZE) and the dynamic structure factor S(Q, E) (ToF), involves a Fourier transformation that requires detailed knowledge of the detector efficiency, instrumental resolution, signal background and range of validity of the spin-echo approximation. It is demonstrated that data obtained from pure water align well within the framework presented here, thereby extending the applicability of the MIEZE technique beyond the spin-echo approximation and emphasizing the complementarity of the two methods. Computational methods, such as molecular dynamics simulations, are highlighted as essential for enhancing the understanding of complex systems. Together, MIEZE and ToF provide a powerful framework for investigating dynamic processes across different time and energy domains, with particular attention required to ensure identical sample geometries for meaningful comparisons.

我们报告了零努力调制强度(MIEZE),一种中子自旋回波技术和中子飞行时间(ToF)光谱,一种传统的中子散射方法的比较。对记录信号的评估,可以通过中间散射函数I(Q, τ) (MIEZE)和动态结构因子S(Q, E) (ToF)来描述,涉及傅立叶变换,需要详细了解探测器效率、仪器分辨率、信号背景和自旋回波近似的有效范围。结果表明,从纯水中获得的数据在本文提出的框架内很好地对准,从而扩展了MIEZE技术在自旋回波近似之外的适用性,并强调了两种方法的互补性。计算方法,如分子动力学模拟,被强调为加强对复杂系统的理解所必需的。MIEZE和ToF一起为研究不同时间和能量域的动态过程提供了一个强大的框架,需要特别注意确保相同的样品几何形状以进行有意义的比较。
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引用次数: 0
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Journal of Applied Crystallography
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