beamlines
A high-pressure single-crystal-diffraction experimental system at 4W2 beamline of BSRF
aBeijing Synchrotron Radition Facility, Institute of High Energy Physics, Chinese Academy of Sciences, 19B Yuquan Road, Shijingshan District, Beijing 100049, People's Republic of China, and bInstitute of Microstructure and Properties of Advanced Materials, Beijing University of Technology, 100 Ping Le Yuan, Chaoyang District, Beijing 100124, People's Republic of China
*Correspondence e-mail: lixd@ihep.ac.cn, huilicn@yahoo.com
Information on the structural evolution of materials under high pressure is of great importance for understanding the properties of materials exhibited under high pressure. High-pressure powder diffraction is widely used to investigate the structure evolution of materials at such pressure. Unfortunately, powder diffraction data are usually insufficient for retrieving the atomic structures, with high-pressure single-crystal diffraction being more desirable for such a purpose. Here, a high-pressure single-crystal diffraction experimental system developed recently at beamline 4W2 of Beijing Synchrotron Radiation Facility (BSRF) is reported. The design and operation of this system are described with emphasis on special measures taken to allow for the special circumstance of high-pressure single-crystal diffraction. As an illustration, a series of diffraction datasets were collected on a single crystal of LaB6 using this system under various pressures (from ambient pressure to 39.1 GPa). The quality of the datasets was found to be sufficient for structure solution and subsequent refinement.
Keywords: high pressure; single crystal; XRD.
1. Introduction
Pressure has an important effect on the structure and properties of materials. Studies on materials under high pressure may lead to fundamental discoveries of new phases and novel physics and chemistry. Therefore, the development of facilities to perform high-pressure studies has attracted great interest from researchers from diverse fields since the 1970s. Up to now, high-pressure powder diffraction has been the most widely used technique for studying the structure evolution of materials under high pressure (Hemley et al., 1987; Mao et al., 1989, 2006; Chen et al., 2004; Katrusiak, 2008; Akahama & Kawamura, 2010; Ridley & Kamenev, 2014; Shahar et al., 2016). In a typical high-pressure powder diffraction experiment, sample in powder form is loaded in a diamond anvil cell (DAC) to be applied a desired pressure, and then exposed to synchrotron radiation for collection of powder diffraction data. Nevertheless, powder diffraction data have inherent limitations, such as broadening and overlapping of diffraction peaks, and low signal-to-noise ratios. Single-crystal diffraction data are much more favourable for retrieving structure information because they contain three-dimensional positional information of reflections, and do not suffer from the problems of and overlapping of reflections. Moreover, it is much easier to achieve a good signal-to-noise ratio for single-crystal diffraction than for powder diffraction. Therefore, single-crystal diffraction is particularly preferred over powder diffraction for sources with low energy and such as Beijing Synchrotron Radiation Facility (BSRF) for example. Not only the atomic coordinates of crystals but also small structural distortions, disorders and reliable displacement parameters can usually be well determined from single-crystal diffraction data. Unfortunately, in comparison with regular single-crystal diffraction instruments, high-pressure single-crystal diffraction facilities are much more complex in instrumental design, data collection and reduction due to the presence of the DAC. The main difficulties of high-pressure single-crystal diffraction are as follows. Firstly, the investigated crystals have to be loaded into a chamber formed by diamond anvils and gasket, and immersed in a pressure medium. The completeness and redundancy of the data collected in high-pressure single-crystal diffraction measurements are severely limited due to the shadowing effect of the DAC. To compensate for the insufficient completeness and redundancy, the intensities of the accessible reflections should be determined as accurately as possible. This puts forward higher requests for intensity integration and correction. Secondly, a DAC with a wide opening cone has to be used to alleviate the shadowing effect. Thirdly, the single crystals will usually degrade in quality due to the effect of non-hydrostatic pressure, resulting in much distorted reflections. Lastly, single crystals may be crushed into pieces under high pressure, leading to the superposition of reflections from crystallites with random orientation. Specific algorithms have to be developed to analyse such data.
Up to now, experimental apparatus for high-pressure powder diffraction has been generally available at most synchrotron radiation facilities. Facilities for high-pressure single-crystal diffraction measurements have been developed at a few synchrotron radiation sources, such as the Advanced Photon Source (Shen & Sinogeikin, 2015), SPring-8 (Watanuki et al., 2007), European Synchrotron Radiation Facility (Mezouar et al., 2005) and Petra III (Rothkirch et al., 2013); in comparison with high-pressure powder diffraction facilities, high-pressure single-crystal diffraction systems are much less available at synchrotron radiation sources. Even worse, the facilities for high-pressure single-crystal diffraction are usually inferior to those for high-pressure powder diffraction in terms of usability. In addition to the high-pressure single-crystal diffraction apparatus installed at synchrotron radiation facilities, laboratory apparatus has also been reported. For example, Angel's group have developed apparatus for high-pressure single-crystal diffraction based on a commercially available diffractometer, and achieved some interesting results using such laboratory instruments (Angel, 2004; Ross et al., 2004; Zhao et al., 2010; Angel & Gonzalez-Platas, 2013). Limited by the intensity of the light source, the highest pressure attainable with laboratory apparatus is usually less than 20 GPa (Lager et al., 2002; Ross et al., 2004; Sowa & Ahsbahs, 2006; Zhao et al., 2010; Wu et al., 2013). Due to the difficulties in the development of instruments, few studies on high-pressure single-crystal diffraction have been reported (Hazen et al., 1987; Angel & Finger, 2011; Dera et al., 2011; Posner et al., 2014; Li et al., 2015).
BSRF is a first-generation synchrotron radiation source, which was developed from the late 1980s to early 1990s as a part of the Beijing Electron Positron Collider (BEPC), and upgraded in 2004–2009. BSRF has three experimental halls, five insertion devices and 14 beamlines/endstations. The storage ring operates at 2.5 GeV and 250–150 mA in dedicated synchrotron radiation mode. The beam intensity is constantly 250 mA in top-up mode.
In 2006, experimental apparatus for high-pressure angle-dispersive X-ray powder diffraction was developed at the high-pressure station at the 4W2 beamline of BSRF (Lin et al., 2012; Xiao et al., 2012; Li et al., 2014). To retrieve more information on the structure evolution of materials under high pressure, apparatus was recently installed at the same endstation to collect diffraction data from single crystals in DACs. Here we report the key technical details and the operation of the recently installed experimental system, together with the software specially developed for it. Then diffraction datasets from LaB6 recorded under various pressures are shown as an example to illustrate the data quality attainable with this facility.
2. Beamline overview
The high-pressure endstation is located at beamline 4W2 of BSRF. A schematic overview of the beamline is shown in Fig. 1, while its parameters are listed in Table 1. The beamline receives radiation from an in-vacuum multi-period wiggler, the specifications of which are given in Table 2. The beam in the energy range 3.5–25 keV is then monochromated by a water-cooled Si(111) double-crystal monochromator at a distance of 16.5 m from the source. The energy of the electrons of BSRF is only 2.5 GeV, so the of the beam decreases drastically in the high energy range, as shown in Figure S1 of the supporting information. Using X-rays with higher energy will be helpful in increasing the accessible reciprocal volume and reducing the absorption by diamond anvils. As a compromise between beam energy and beam X-rays of 20 keV (corresponding to a wavelength of 0.6199 Å) are usually selected as the incident beam for our single-crystal experiments. The energy of the incident beam is calibrated by scanning the K-edge of Mo.
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A slit with dimensions 1.0 mm (H) × 1.2 mm (V) is mounted upstream of the monochromator to limit the size of the beam irradiating onto it. An ion chamber is mounted downstream of the monochromator to monitor the beam intensity. The intensity detected by the ion chamber is recorded during the exposure process, and subsequently used to correct the intensity of the collected reflections. The ion chamber is followed by an XRS6 fast shutter from Uniblitz® to control precisely the exposure time during data collection. Another slit is used downstream of the fast shutter to further limit the beam size to 50 µm × 50 µm. A tip of diameter 2 mm and length 50 mm was mounted near the DAC. After passing through a pinhole with a diameter of 50 µm at the exit of the tip, the X-ray beam intersects the axis of the ω-rotation stage at a certain point, which is termed the rotation centre with reference to a regular laboratory instrument. The tip and pinhole not only effectively remove the stray light in the ambient environment but also limit the beam to the desired size. The total distance from the source to the sample is 18.75 m. Due to such a rather short distance, in high-pressure powder diffraction experiments, a Kirkpatrick–Baez (KB) focusing mirror is positioned in the immediate vicinity of the sample to achieve a small beam size with high Unfortunately, this configuration will result in a large convergence angle of the focusing beam. In the apparatus for high-pressure single-crystal diffraction, only the slit and pinhole are adopted to form a small beam size. KB focusing mirrors are abandoned to avoid broadening of diffraction spots, that result from the beam convergence. Additionally, the scattering power of single-crystalline samples is orders of magnitude higher than that of powder samples; diffraction data with sufficiently high signal-to-noise ratios may be attained even without using KB mirrors to improve the of the incident beam.
A photograph of the experimental setup around the sample stage is shown in Fig. 2.
To collect the diffraction data, the single-crystalline sample is first loaded into the DAC which is specially optimized for single-crystal diffraction. The DAC is then mounted on a stage which can move in three mutually perpendicular directions. Subsequently, the sample is positioned at the rotation centre with a precision better than 1 µm by adjusting the stage and rotation-scanning the crystal alternately. The position of the crystal is checked before data collection at each pressure. The rotation centre is also taken as the reference point to determine the sample–detector distance. The beam size at the sample position is 50 µm × 50 µm, much larger than a typical sample size (usually less than 20 µm × 20 µm × 10 µm) and positioning precision, so that consistent and reliable diffraction data can be recorded. After being correctly positioned at the rotation centre, the crystal rotates along a vertical axis to allow data collection at each desired orientation.
A Mar345 image plate is adopted as the detector. Although CCDs allow for faster readouts, image plates have a lower electronic noise and can achieve better signal-to-noise ratios. In addition, a large effective detective area is more attainable for image plates. For example, the Mar345 image plate has an effective detective area as large as 345 mm in diameter. The detective area of a typical CCD is in the range 75–165 mm in diameter. The large detective area allows for more reflections to be recorded per exposure. Limited by the small detective area, CCDs have to be placed at different positions to collect all the diffraction data which can be recorded by a fixed Mar345. This will significantly increase the complexity of the system. The pixel size of the Mar345 is 100 µm × 100 µm. In a typical experiment, the intensity of each reflection is distributed across several pixels. This benefits retrieval of diffraction intensities in the subsequent data processing. The distance from the sample to the image plate is about 185 mm, corresponding to a resolution limit of 0.83 Å. We also have a Pilatus3 2M detector available at beamline 4W2. Although the Pilatus3 2M is much faster than the Mar345, it has much larger pixels (172 µm × 172 µm), which will deteriorate the spatial resolution of the reflection spots. In addition, the Pilatus3 2M has a higher proportion of inactive area (8%) than the Mar345. Due to the shadowing effect of the DAC, the accessible reciprocal volume is very limited in high-pressure single-crystal diffraction measurements. The high proportion of inactive area will further deteriorate the completeness and redundancy of diffraction datasets. Therefore, we use a Mar345 rather than a Pilatus to collect the single-crystal diffraction data.
3. Technical details
3.1. Workflow of high-pressure single-crystal diffraction measurement and overview of experimental setup
Collecting a diffraction dataset from a single crystal under high pressure is not so different from data collection using a regular laboratory instrument. First, the crystal is loaded and properly aligned. Then, a preliminary check is performed to evaluate the crystal quality and find the proper parameters for data collection. Subsequently, the diffraction data are collected. After indexing, integrating of reflections and applying a series of corrections, a dataset suitable for HPSXRD, has been developed for the high-pressure single-crystal diffraction system, which not only controls the data acquisition but also implements indexing, integrating and correction of reflections. Finally, the diffraction dataset is exported as a data file in SHELX *.hkl format, which may be input into other programs for and A flow chart of the high-pressure single-crystal diffraction measurement and the main functions of the HPSXRD package are shown in Fig. 3.
and is finally obtained. A software package,The HPSXRD package is based on a Windows platform, and accessible for external users. Usually the external users can learn to use HPSXRD in a few minutes with the help of an easy-to-understand graphical user interface (GUI).
Some specific technical details of our system are given below.
3.2. DAC for single-crystal diffraction
The most significant characteristic of high-pressure single-crystal diffraction, which distinguishes it from regular single-crystal diffraction, lies in the crystal to be investigated having to be loaded into a DAC. Modifications have been made on commonly used symmetric DACs to obtain a wider accessible angular range. Anvils and seats of Boehler design (Boehler & Hantsetters, 2004) were adopted to achieve a large opening angle. The large opening angle is favourable for alleviating the shadowing effect of DACs, and collecting as many reflections as possible. On the other hand, it reduces the maximum attainable pressure applied to the sample. An opening angle of 70° was adopted as a compromise between the attainable diffraction range and maximum pressure. With such an opening angle, the DAC will not block the incident or diffracted X-ray beam even when the crystal rotates up to ±30° along the vertical axis. Because the beam size is 50 µm × 50 µm, the dimensions of the sample should be strictly limited to be compatible with the beam size. Samples with dimensions of less than 20 µm are preferred, and can be fully covered by the beam in the process of data collection. Then the scattering volume remains constant during the data collection. The constant scattering volume is convenient for the subsequent data processing. Diamond anvils with a culet diameter of 250–300 µm are usually adopted. such as Ar, Ne or He, is filled into the sample hole of the gasket as a pressure medium to provide a quasi-hydrostatic environment. Meanwhile, a ruby is loaded together with the sample as a pressure marker.
3.3. Indexing of reflections
In a few cases, samples from external users are aggregations of several crystallites rather than a real single-crystal. More frequently, single crystals are crushed into small pieces under high pressure. In both cases, the collected reflections come from several crystals at random orientation with respect to each other rather than a real single-crystal. This imposes great difficulties on the indexing of reflections. The well developed methods for the indexing of regular single-crystal data, such as the Niggli reduction method (Křivý & Gruber, 1976; Andrews & Bernstein, 1988) and the Fourier transform method (Steller et al., 1997; Rossmann, 2006), cannot be applied directly to index such data. Therefore, a new protocol to index such diffraction data has been proposed (Li et al., 2013).
3.4. Integration of diffraction data
A few methods have been developed to determine the intensity numerically of each diffraction spot collected using a two-dimensional detector. In general, these methods can be classified into two distinct types. One method is to fit the shape of a diffraction peak using a two-dimensional function and then determine the intensity of a reflection by integrating the corresponding function (Dera et al., 2013). Nevertheless, this method is only applicable to diffraction peaks with a regular shape. The diffraction spots recorded in high-pressure single-crystal diffraction measurements are usually very distorted due to the presence of stress (Fig. 4), so can hardly be well fitted using a function. The other method is to analyse each diffraction spot statistically and determine its background level. Then the intensity of a certain reflection is obtained by subtracting the background from the total counts (Leslie, 2006). This method is applicable to the distorted diffraction spots, so is chosen in HPSXRD to determine the intensity of reflections.
The detailed procedure of determining the intensity of a diffraction spot implemented in HPSXRD is as follows. First, a region including N pixels around a Bragg position is delimitated. Then the average counts over the whole region, A1, are calculated,
where Pi is the counts at the ith pixel and N is the number of pixels in the whole region.
Afterwards, the average counts over all the pixels with counts less than A1 are calculated as A2,
where Pj is the counts at the jth pixel and M is the number of pixels with counts less than A1.
The intensity of a reflection is defined as
The above algorithm is similar to that implemented in early instruments, such as the Enraf–Nonius CAD-4 diffractometer, for integrating the intensity of reflections detected by point detectors.
An example is given in §2 of the supporting information to illustrate how the intensity of a reflection is calculated in the HPSXRD package.
3.5. Lorentz-polarization factor and correction for DAC attenuation
During the data collection, the crystal rotates along the vertical axis at a constant angular velocity ω, resulting in different linear velocities at which the corresponding points go through the sphere of reflection (Ewald's sphere). The difference in exposure time among various reflections is taken into account by the Lorentz factor. Holton & Frankel (2010) have derived the Lorentz factor for the case in which the crystal rotation axis is perpendicular to the X-ray beam, given by
where θ is the ζ is a normalized projection of the point vector onto the rotation axis (z), is ζ in terms of spot coordinates on a flat detector normal to the incident beam, Zdet is the coordinate of the diffraction spot on the detector along the axis parallel to the rotation axis (relative to the beam center in mm) and Xstf is the sample-to-detector distance along the direct-beam path (in mm). In our case, the Lorentz factor is reduced to a more simple form,
where DM is the distance from the rotation centre to the diffraction spot on the detector, and Y is the horizontal coordinate of the diffraction spot on the detector.
The X-ray beam striking the sample is polarized due to the nature of synchrotron radiation and the reflection by monochromator crystals. The polarization factor applicable to such a case has been derived by Kahn et al. (1982), and is adopted in HPSXRD directly. The polarization factor P derived by Kahn et al. is
where θ is the of a reflection and ρ is the angle between the horizontal axis (y axis) of the detector and the line going through the reflection and the transmitted spot. Both θ and ρ are illustrated in Fig. 5. is a parameter dependent on both the polarization of the synchrotron radiation source and the of the monochromator crystal, which may be deduced by fitting the background measured on the detector.
Before striking the sample, the X-ray beam has to go through the upstream diamond anvil, which is actually a millimetre-scale single-crystal. The X-ray beam will be attenuated owing to absorption and diffraction by the upstream diamond anvil, and the detected diffraction intensities have to be corrected to take into account this attenuation. Before or after the data collection, the intensity of the transmitted beam going through the upstream diamond anvil should be recorded at various ω angles. A typical plot of the intensities of the transmitted beam versus ω is shown in Fig. 6. At some particular ω angles, the transmitted beam is strongly attenuated due to the diffraction by the upstream diamond anvil. The envelope of the curve reveals the effect of absorption by the upstream anvil on the intensity of the transmitted beam. Such a curve as that shown in Fig. 6 can be used to correct the directly detected intensities because at each ω angle the orientation of the upstream diamond anvil for data collection is the same as that for recording the curve.
Owing to the absorption and reflection, the diffracted beam is further attenuated by the downstream diamond anvil. The attenuation is taken into account by calculating the path of a certain diffracted beam in the downstream diamond anvil. The attenuation due to the diffraction by the downstream diamond anvil is very complicated, and a method to compensate for it has not been developed yet. Fortunately, this attenuation seems to be insignificant, as revealed by the sample dataset presented in the following section.
4. Sample dataset
The experimental system, including the hardware and software, was validated using a crystal of LaB6 as a reference. Datasets were collected in a pressure range from ambient pressure up to 39.1 GPa. The experiment was performed in a single-crystal DAC with 250 µm-diameter culets. A single crystal of size 20 µm × 20 µm × 25 µm was loaded into a 70 µm-diameter sample hole in a pre-indented stainless steel gasket with a thickness of 30 µm. Ne was filled into the sample chamber using a home-made compressed-gas loading system as a pressure medium to provide a quasi-hydrostatic environment. Ruby chips were used for pressure calibration (Mao et al., 1986). Reflections were collected by ω scan in the range from −25° to 25°. Diffraction patterns were recorded at 2° intervals of ω. Each frame was exposed for 30 s. The result of a continuous ω scan is shown in Fig. 7 to give readers a direct impression of the diffraction data collected under high pressures. The resultant datasets were applied appropriate corrections and then input into SHELXL97 (Sheldrick, 2008) to refine the structure. The results of the are summarized in Table 3. B0 = 179 ± 2 GPa and = 3.6 ± 0.1 are derived by fitting the experimental data with a third-order Birch–Murnaghan equation of state. The parameters of B0 and obtained in this work agree better with the theoretically predicted values (Gürel & Eryiğit, 2010) than those derived in previous studies (Teredesai et al., 2004; Godwal et al., 2009), as shown in Table 4 and Fig. 8. As shown in Fig. 8, the observation points obtained in this study coincide with the fitted line very well, and the fitted line also agrees well with the theoretically predicted one. As indicated by the low R-factors of the shown in Table 3, the datasets of LaB6 are of high quality, which makes it feasible to retrieve the electron density from these datasets by the maximum method. Further details about the dependence of the electron density distribution of LaB6 on pressure will be reported elsewhere.
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5. Conclusion
An experimental system has been set up at beamline 4W2 of BSRF to implement high-pressure single-crystal diffraction. In comparison with the regular laboratory instruments for single-crystal diffraction, the facility reported here has additional difficulties in designing, developing and data processing. Solutions for the major technical challenges are presented. The facility was validated using a crystal of LaB6. The quality of the resultant dataset is found to be sufficient for structure solution and In addition, we also hope to develop a facility for low-temperature high-pressure single-crystal diffraction techniques in the near future.
Supporting information
1: Flux-energy curve of beamline 4W2 at BSRF. 2: An example of integrating the intensity of a reflection. DOI: https://doi.org/10.1107/S1600577517003393/ig5040sup1.pdf
Acknowledgements
We are grateful to Director Guoyin Shen (High Pressure Collaborative Access Team, Carnegie Institution of Washington) for advice on the system setup. The authors are grateful to Professor Meng He (National Centre of Nanoscience and Technology, China) for his help in preparing the manuscript.
Funding information
Funding for this research was provided by: National Natural Science Foundation of Chinahttps://dx.doi.org/10.13039/501100001809 (award Nos. 11274030, 11474281).
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