| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2017-07-05 | Update docs | Thomas White | |
| 2017-07-05 | Rearrange quaternion declarations so that gtk-doc can cope | Thomas White | |
| The utils file contains two gtk-doc sections, "utils" and "quaternion", with a change of section halfway through. It seems that gtk-doc doesn't like it if the declarations are all mixed together. | |||
| 2017-07-04 | Add a missing newline | Thomas White | |
| 2017-07-04 | Switch CBF support on by default | Thomas White | |
| 2017-07-04 | pattern_sim: Try all OpenCL platforms to find one with a GPU device | Thomas White | |
| 2017-07-04 | Check for CBF headers, even if they're somewhere weird | Thomas White | |
| 2017-06-27 | indexamajig: Add --no-non-hits-in-stream | Thomas White | |
| 2017-06-27 | Dummy setup bits for INDEXING_NONE | Thomas White | |
| This doesn't do much except for preventing a possibly confusing warning message about "Failed to prepare indexing method none". You can actually do --indexing=none,asdf, but don't tell anyone... | |||
| 2017-06-27 | If prediction refinement fails, don't carry on and check the cell | Thomas White | |
| Doing so results in one crystal being counted as bad twice, which messes up the logic which follows. | |||
| 2017-06-23 | Accept either cbf/cbf.h or cbflib/cbf.h | Thomas White | |
| You get cbflib/cbf.h if you install CBFlib from source, and cbf/cbf.h if using the package manager in Fedora, probably other systems as well. We definitely don't want to include the cbf or cbflib folder in the include path, because CBFlib may bring its own HDF5 headers, which we don't want to touch with a bargepole. | |||
| 2017-06-21 | Update ChangeLog | Thomas White | |
| 2017-06-21 | Close more leftover HDF5 handles | Thomas White | |
| 2017-06-21 | Don't compile CBF stuff without CBFlib | Thomas White | |
| 2017-06-21 | Close leftover HDF5 handles | Thomas White | |
| 2017-06-21 | hdf5_read2(): Fix exit path | Thomas White | |
| Bad pixel map is not allocated at this point. | |||
| 2017-06-21 | indexamajig: Add --min-peaks (basic hitfinder functionality) | Thomas White | |
| 2017-06-21 | Merge branch 'tom/cbf' | Thomas White | |
| 2017-05-18 | Update ChangeLog | Thomas White | |
| 2017-05-17 | Actually add scripts/sum-peaks | Thomas White | |
| 2017-05-16 | check_hkl: Calculate resolution of reflection with asymmetric indices for ↵ | Thomas White | |
| both possible and measured reflections Previously, it used whichever indices it found first. This made the resolutions different enough to fall into different bins, and screwed up the completeness (fortunately, rarely). | |||
| 2017-05-16 | Add scripts/sum-peaks | Thomas White | |
| 2017-05-12 | Make all Python scripts compatible with Python 2 and 3 | Thomas White | |
| It would be nice to upgrade completely to Python 3, but this may create problems at SLAC because psana only supports Python 2 (Python 3 is available, but means that users have to jump through hoops to run a simple CrystFEL script). None of our scripts do anything complicated, so they can all be compatible with both so far. If anyone adds a script which requires a particular version, make sure to specify the version in the first line, consistent with PEP 394. | |||
| 2017-05-09 | Allow reading CBF without geometry (only for simple viewing) | Thomas White | |
| 2017-05-09 | Add missing checks | Thomas White | |
| 2017-05-05 | Show filename of CBF file if it can't be read | Thomas White | |
| 2017-05-05 | Fill in photon energy, clen and adu for CBFs | Thomas White | |
| This needed a bit of reorganisation and clarification of who is repsonsible for loading what. The low-level file loaders, e.g. hdf5_read and hdf5_read2 in hdf5-file.c or cbf_read in image.c, are responsible. There is a helper function adjust_centering_for_rail in detector.h which they can use. It seems like this could be done more cleanly at the imagefile layer. However, we need to make sure that the "old" hdfile API still works on its own, even when not accessed via the new imagefile API. | |||
| 2017-05-05 | Allow location of photon energy (eg in HDF5 file) to start with any character | Thomas White | |
| 2017-05-05 | Read CBF data | Thomas White | |
| 2017-05-03 | hdfsee: Use new imagefile API | Thomas White | |
| 2017-05-03 | Detect CBF files, interface bits | Thomas White | |
| 2017-05-03 | hdfile_set_image(): Remove panel argument | Thomas White | |
| Seems to have been added in 2014 and is not used at the moment | |||
| 2017-05-03 | autoconf bits for CBFlib | Thomas White | |
| 2017-05-03 | HDF5 reading under new API | Thomas White | |
| 2017-05-02 | Skeleton image file API | Thomas White | |
| 2017-05-02 | Initial CBF stuff | Thomas White | |
| 2017-04-13 | Add half-pixel offset for peakfinder8 | Thomas White | |
| Like zaef, the pixel indices need to be converted to geometrical coordinates. This increases the indexing rate by about 5% in my test. | |||
| 2017-04-13 | hdf5_read2(): Free buffers when read fails | Thomas White | |
| 2017-03-31 | geoptimiser: Show peak information when there is a problem | Thomas White | |
| 2017-03-31 | geoptimiser: Fix rounding of peak coordinates | Thomas White | |
| Peak locations in CrystFEL are considered to be distances (in pixel units) from the corner of the detector panel. Therefore, simple truncation is needed here, not rounding. | |||
| 2017-03-31 | Offset peak locations from HDF5 or CXI files by 0.5,0.5 | Thomas White | |
| CrystFEL considers all peak locations to be distances from the corner of the detector panel, in pixel units, consistent with its description of detector geometry. In contrast, Cheetah considers the peak locations to be pixel indices in the data array. Therefore, a half-pixel offset is needed when importing the peak lists. For users who need the old behaviour, this commit adds a new option indexamajig --no-half-pixel-shift to deactivate this offset. | |||
| 2017-03-24 | indexamajig: Format --help and fix typos | Thomas White | |
| 2017-03-24 | Remove an old debugging message | Thomas White | |
| 2017-03-24 | Propagate error if indexing method is unrecognised | Thomas White | |
| 2017-03-24 | Merge branch 'valerio/peakfinder8' | Thomas White | |
| 2017-03-24 | Mostly fussiness | Thomas White | |
| 2017-03-22 | Completely revamped implementation of peakfinder8 | Valerio Mariani | |
| 2017-03-15 | largest_q(): Handle NULL detector | Thomas White | |
| 2017-03-13 | Added management of max_num_peaks per image instead of per panel | Valerio Mariani | |
| 2017-03-13 | Added information about max_num_peaks to documentation | Valerio Mariani | |
| 2017-03-13 | Added saturated peak management to peakfinder8 | Valerio Mariani | |
 |
index : CrystFEL | |
| Data processing for serial crystallography | Thomas White |
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