issue contents

Journal logoJOURNAL OF
APPLIED
CRYSTALLOGRAPHY
ISSN: 1600-5767

August 2016 issue

Highlighted illustration

Cover illustration: Simulated reciprocal space maps for lateral crystals of different dimensions. Courtesy of Punegov et al. [J. Appl. Cryst. (2016), 49, 1190-1202].

editorial


J. Appl. Cryst. (2016). 49, 1117-1120
doi: 10.1107/S1600576716011134
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The latest virtual special issue of Journal of Applied Crystallography (http://journals.iucr.org/special_issues/2016/ccpfel) presents tools for a range of topics in free-electron laser research such as simulation of experiments, online monitoring of data collection, selection of hits, diagnostics of data quality, data management, data analysis and structure determination for both nanocrystallography and single-particle diffractive imaging.

research papers


J. Appl. Cryst. (2016). 49, 1121-1129
doi: 10.1107/S1600576716007135
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A procedure is described for polarized neutron reflectometry when the Zeeman corrections are significant, which occurs when both the magnetic anisotropy and the applied magnetic field are significant. Calculations and a recommended procedure for an example system are provided.

J. Appl. Cryst. (2016). 49, 1130-1140
doi: 10.1107/S1600576716006725
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Energy-resolved neutron imaging is used for a nondestructive study of bulk internal microstructure, elemental composition and distribution of voids in dissimilar metal-alloy welds of ∼10 mm thickness. All these characteristics are measured simultaneously in one experiment with a few hundred micrometre spatial resolution.

J. Appl. Cryst. (2016). 49, 1141-1147
doi: 10.1107/S1600576716007676
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An approach to solving an ill posed inverse problem of determining actual residual stresses in thin films and compact solid materials using X-ray diffraction is described.

J. Appl. Cryst. (2016). 49, 1148-1161
doi: 10.1107/S1600576716007962
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Coarse-grained form factors are developed from a novel computational method for amino acid residues to enhance the computational efficiency of solution small-angle X-ray scattering modelling. The method is based on fitting the Fourier transform of protein electron density, and the resulting protein scattering intensity profiles are consistent with theoretical atomistic profiles and experimental data.

J. Appl. Cryst. (2016). 49, 1162-1176
doi: 10.1107/S1600576716007810
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A quantitative measure for the scale-dependent heterogeneity of a structure is designed, which can be calculated from small-angle scattering data. This measure generalizes the notion of correlation function, and it leads to novel data analysis procedures.

J. Appl. Cryst. (2016). 49, 1177-1181
doi: 10.1107/S1600576716008980
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The composition, crystal structure and precipitation crystallography of a newfound MgxAl2−xGd precipitate are characterized by Cs-corrected scanning transmission electron microscopy.

J. Appl. Cryst. (2016). 49, 1182-1189
doi: 10.1107/S1600576716008566
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A mechanical assembly has been successfully designed to combine a MYTHEN 1K with a point detector, and is proved facile for the angular calibration of individual pixels. In `flat-plate transmission' geometry, which is frequently used in various operando experiments, straightforward corrections can be efficiently made to compensate for sample displacement away from the diffractometer center.

J. Appl. Cryst. (2016). 49, 1190-1202
doi: 10.1107/S1600576716008396
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The two-dimensional dynamical theory of X-ray Bragg–Laue diffraction has been developed for deformed lateral crystalline structures having a rectangular cross section. This approach allows one to calculate rocking curves as well as reciprocal space maps for both the transmitted and reflected wavefields. The approach can be used in coherent diffraction imaging to simulate far-field diffraction patterns produced by relatively large deformed crystals.

J. Appl. Cryst. (2016). 49, 1203-1208
doi: 10.1107/S1600576716009572
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The simultaneous determination of tensile and shear strains in crystals and multilayers using three Bragg reflections of X-rays is described.

J. Appl. Cryst. (2016). 49, 1209-1222
doi: 10.1107/S1600576716009183
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Rotation of X-ray polarization at the glitches of a monochromator composed of single crystals of silicon is observed. This effect can be explained by a model taking full account of the X-ray source, the effects of multiple-beam dynamical diffraction, and the coherent and Compton scattering from the sample.

J. Appl. Cryst. (2016). 49, 1223-1230
doi: 10.1107/S160057671600933X
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The orientation relationships (ORs) between the Al matrix and Si2Hf precipitates in an Al–Si–Mg–Hf alloy were investigated. The habit planes of four ORs are rationalized and the formation of Si2Hf precipitates with a nanobelt-like morphology is interpreted on the basis of the near-coincident site lattice distribution.

J. Appl. Cryst. (2016). 49, 1231-1239
doi: 10.1107/S1600576716010396
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Bovine cornea was studied with scanning small-angle X-ray scattering microscopy, by using both synchrotron radiation and a microfocus laboratory source. The supramolecular structure of the collagen fibers is explored thanks to the combination of statistical (adaptive binning and canonical correlation analysis) and crystallographic (pair distribution function analysis) approaches.

J. Appl. Cryst. (2016). 49, 1240-1244
doi: 10.1107/S1600576716009171
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Numerous applications in X-ray crystal optics and instrumentation require ultra-thin perfect diamond single crystals, just a few micrometres to a few tens of micrometres thick, properly functioning under Bragg diffraction conditions. Reported here are the successful manufacture and characterization of diamond drumhead crystals, monolithic crystal structures composed of a thin membrane furnished with a surrounding solid collar, using picosecond laser milling.

J. Appl. Cryst. (2016). 49, 1245-1252
doi: 10.1107/S1600576716008074
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The SHARP framework provides fast images from high-throughput ptychographic datasets and a corner stone for demanding higher-dimensional analysis such as spectro-ptychography or tomo-ptychography.

J. Appl. Cryst. (2016). 49, 1253-1265
doi: 10.1107/S1600576716009006
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A study of TaC precipitate stability in a Co–Re-based alloy for high-temperature application is presented. Complementary methods such as small-angle neutron scattering, X-ray diffraction, neutron diffraction and scanning electron microscopy characterize the precipitates under various heat treatments.

J. Appl. Cryst. (2016). 49, 1266-1275
doi: 10.1107/S1600576716009936
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This is a real-time in situ study of the growth and annealing of mixtures of the organic semiconductors α-sexithiophene (6T) and C60. Interesting crystal-phase behaviour for different growth conditions and phase transformations during annealing are reported.

J. Appl. Cryst. (2016). 49, 1276-1283
doi: 10.1107/S1600576716010372
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The crystal structure and morphological and crystallographic features of the microstructure in 4O modulated martensite of an NiMnSn alloy were systematically studied, with the aim of providing some fundamental knowledge to aid the understanding of the alloy's multifunctional properties and further performance optimization.

J. Appl. Cryst. (2016). 49, 1284-1289
doi: 10.1107/S1600576716010402
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The behaviour of the Takagi–Taupin equations in the presence of a strain field with a spatially slowly varying component is studied. Based on the results, a computationally efficient method to solve the Takagi–Taupin equations for such a strain field is developed and demonstrated.

J. Appl. Cryst. (2016). 49, 1290-1299
doi: 10.1107/S1600576716009730
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A quantitative measure for comparison functions on the unit sphere is suggested. A solution is presented to the problem of a quantitative comparison of pole figures with the same indexes but measured for different samples.

J. Appl. Cryst. (2016). 49, 1300-1307
doi: 10.1107/S160057671601044X
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A custom free-form approach is used for reconstruction of grazing-incidence X-ray reflectivity from periodic multilayers; simulated and experimental data fits are presented.

J. Appl. Cryst. (2016). 49, 1308-1314
doi: 10.1107/S1600576716010001
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The determination of the cationic distribution in complex oxide thin films has been shown to be possible through a methodological processing of resonant X-ray diffraction data with a crystallography-based approach.

short communications


J. Appl. Cryst. (2016). 49, 1315-1319
doi: 10.1107/S160057671600649X
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This short communication presents a symmetrized Bingham distribution for the modeling of crystallographic texture which can account for arbitrary crystallographic and statistical sample (resulting from material processing) symmetries. Additionally, an efficient computational scheme is presented for parameter estimation.

computer programs


J. Appl. Cryst. (2016). 49, 1320-1335
doi: 10.1107/S1600576716008165
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A description is given of a single-particle X-ray imaging reconstruction and simulation package using the expand–maximize–compress algorithm, named Dragonfly.

J. Appl. Cryst. (2016). 49, 1336-1346
doi: 10.1107/S1600576716009201
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An overview of how the well established CFEL–ASG Software Suite (CASS) can be used for serial femtosecond crystallography data is given.

J. Appl. Cryst. (2016). 49, 1347-1355
doi: 10.1107/S160057671600995X
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The WavePropaGator (WPG) package is a new interactive cross-platform open-source software framework for modeling of coherent and partially coherent X-ray wavefront propagation. The WPG addresses the needs of beamline scientists and user groups to facilitate the design, optimization and improvement of X-ray optics to meet their experimental requirements. The paper presents a general description of the package and gives some recent application examples.

J. Appl. Cryst. (2016). 49, 1356-1362
doi: 10.1107/S1600576716009213
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Condor, an open-source simulation tool to predict X-ray scattering amplitudes for flash X-ray imaging experiments, is introduced.

J. Appl. Cryst. (2016). 49, 1363-1369
doi: 10.1107/S1600576716011055
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The data acquisition and data management systems used at the Linac Coherent Light Source X-ray free-electron laser are described.

J. Appl. Cryst. (2016). 49, 1370-1376
doi: 10.1107/S1600576716007330
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A computer program for the retrieval of space-group information in several settings is presented, and the generator-containing space-group symbols on which the program is based are described and fully detailed for three-dimensional space groups.

J. Appl. Cryst. (2016). 49, 1377-1382
doi: 10.1107/S1600576716008050
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EosFit7-GUI is a new full graphical user interface for analysing and fitting equations of state.

laboratory notes


J. Appl. Cryst. (2016). 49, 1383-1387
doi: 10.1107/S1600576716008128
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A portable light-delivery device for home in situ photocrystallographic experiments is described and tested.

J. Appl. Cryst. (2016). 49, 1388-1393
doi: 10.1107/S1600576716007950
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The small-angle neutron scattering (SANS) spectrometer Suanni at the China Mianyang Research Reactor has successfully been upgraded from a pinhole SANS instrument to a focusing SANS instrument with ultra-thin biconcave MgF2 focusing lenses. It is found that introducing lenses in the current experimental methodology can either enhance the flux or achieve a smaller Qmin.

obituaries


J. Appl. Cryst. (2016). 49, 1394-1395
doi: 10.1107/S1600576716012061

book reviews


J. Appl. Cryst. (2016). 49, 1396-1397
doi: 10.1107/S1600576716009547
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