| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 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. | |||
| 2017-04-13 | 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 | |
| 2017-03-13 | Ask for C99 in configure.ac, remove weird C99 declarations | Thomas White | |
| 2017-03-13 | process_hkl: Add event IDs to "--stat" file | Thomas White | |
| 2017-03-11 | Removed unused iarg | Valerio Mariani | |
| 2017-03-11 | Fixed some more bugs reported by Yaroslav | Valerio Mariani | |
| 2017-03-10 | Fixed a couple of bugs reported by Tom | Valerio Mariani | |
| 2017-03-10 | Update ChangeLog | Thomas White | |
| 2017-03-10 | compare_hkl: Add --min-measurements | Thomas White | |
| 2017-03-10 | Added peakfinder8 information to the indexamajig man page | Valerio Mariani | |
| 2017-03-10 | cell_print(): Show reciprocal angles | Thomas White | |
| 2017-03-10 | Peakfinder8 in CrystFEL. Same results as Anton's Cheetah implementation | Valerio Mariani | |
| 2017-03-08 | Check unit cell parameters after prediction refinement | Thomas White | |
| 2017-03-08 | Allow indexing system to store its own data, independently of indexing methods | Thomas White | |
| Previously, the indexing system passed all the information on to the indexing engines and then forgot about it. That made it difficult to do things like check the indexing solution after prediction refinement, because the target unit cell was unavailable. Now, the indexing system itself can keep some information. Of course, that information includes the private pointers for the indexing engines themselves. I took the opportunity to streamline things a little bit. The caller can now set up the indexing system in one step, without having to separately parse the names of the indexing methods. The caller no longer has to keep track of a separate array of methods, instead just one structure which contains everything. | |||
| 2017-03-08 | compare_hkl: Fix combination of sigma(I) values for d1sig and d2sig | Thomas White | |
| 2017-03-08 | compare_hkl: Fix documentation | Thomas White | |
| 2017-03-08 | Add SLURM version of turbo-index script | Thomas White | |
| 2017-03-08 | Add example Eiger geometry file | Thomas White | |
| 2017-03-03 | cell_explorer: Better handling of dodgy cells | Thomas White | |
| 2017-03-03 | Return error code if cell can't be inverted | Thomas White | |
| 2017-03-03 | partialator: Better handling of very small number of crystals | Thomas White | |
| 2017-03-03 | geoptimiser: Call g_type_init() only if GLib is old | Thomas White | |
| 2017-02-24 | get_hkl: Fix a segfault when there are no notes | Thomas White | |
| 2017-02-17 | Update docs (add funding acknowledgements) | Thomas White | |
| 2017-02-16 | Fix mask path placeholder check | Thomas White | |
| The mask paths for all panels have to have the same number of placeholders, but the masks do not have to have the same number of placeholders as the panel data blocks. This also tidies up a few excess strdup() calls, and removes partial_event_substitution() because retrieve_full_path() can now handle the number of placeholders being too small. | |||
| 2017-02-02 | Cannot use stamp_response() here | Thomas White | |
| We have a pipe index (0 to n_read), not a process index (0 to n_proc). These are two separate lists, with no correspondence between them. See 7dbbfa4 for another fix related to this issue. | |||
| 2017-02-02 | indexamajig: Add ping mechanism to avoid timing out when trying lots of indexers | Thomas White | |
| 2017-02-02 | cell_explorer: Fix labels once and for all | Thomas White | |
| 2017-02-01 | asdf.c: Divide volume constraints by number of lattice points per unit cell. ↵ | Alexandra Tolstikova | |
| Add F centering | |||
| 2017-02-01 | asdf.c: Divide volume constraints by number of lattice points per unit cell ↵ | Alexandra Tolstikova | |
| since asdf always finds primitive cell | |||
| 2017-02-01 | Fix malloc fail due to integer overflow in N_triplets | Alexandra Tolstikova | |
| 2017-02-01 | Change volume_min, volume_max and d_max when indexing=asdf-comb | Alexandra Tolstikova | |
| 2017-02-01 | Change d_max according to the provided cell | Alexandra Tolstikova | |
| 2017-02-01 | partialator: Exit if point group is unrecognised | Thomas White | |
| 2017-01-12 | indexamajig: Fix hanging on "Waiting for last patterns" | Thomas White | |
| 2016-12-13 | Fix tests for new polarisation correction | Thomas White | |
| Actually, disable the polarisation correction in the tests. | |||
 |
index : CrystFEL | |
| Data processing for serial crystallography | Thomas White |
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