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2021-03-19Merge branch 'tom/fromfile'Thomas White
2021-03-19FromFile indexer: Option processingThomas White
This give FromFile its own private command-lien option processing, like the other indexers. It removes the ability to auto-generate the solution filename, but I don't think there's a way to do that without breaking abstractions.
2021-03-17CrystFELImageView: Fix zoom limitsThomas White
2021-03-17GUI: Show beam centre more clearly, and optionallyThomas White
2021-03-16CrystFELImageView: Avoid crash when scrolling after image load failureThomas White
2021-03-16get_hkl: Fix logic for loading unit cellThomas White
2021-03-16get_hkl: Add options to export to MTZ and XDSThomas White
2021-03-16Move MTZ and XDS export to libcrystfelThomas White
2021-03-15GUI: Add interface for --fix-profile-radius and --fix-divergenceThomas White
2021-03-12GUI: Add NULL filename for FromFile indexing (which isn't used here)Thomas White
2021-03-12Clean up after mergeThomas White
2021-03-12Merge branch 'pascal/electrons'Thomas White
2021-03-11indexamajig: Use static wavelength from DataTemplate as estimateThomas White
If the geometry file contains a literal wavelength, then let's use it. That's better than nagging the user for a --wavelength-estimate.
2021-03-11indexamajig: Add --max-indexer-threadsThomas White
This is a more general replacement for --pinkIndexer-thread-count.
2021-03-11indexamajig: Remove misleading messageThomas White
Spectrum file is currently not supported at all. Maybe later.
2021-03-11PinkIndexer: Remove custom indexing checksThomas White
These conflict badly with CrystFEL's own checks, creating a horrible user and developer experience. Later, if we want to handle wide bandwidth beams, we will improve the central CrystFEL checks to support it.
2021-03-11detgeom_transform_coords: Take an additional detector shiftThomas White
This allows the refined detector position to be used in a lot of places.
2021-03-11setup_indexing: Remove dtemplThomas White
There is absolutely nothing useful that an indexing algorithm can do with the opaque DataTemplate object.
2021-03-11indexamajig: Add --wavelength-estimateThomas White
This is a more sensible non-indexer-specific and non-Xray-specific replacement for --pinkIndexer-override-photon-energy
2021-03-05Mass update of copyright dates in source code commentsThomas White
2021-03-04SLURM: Better handling of job cancellation/crashingThomas White
2021-03-04SLURM: Cancel job by calling scancelThomas White
The API for cancelling a job seems to be Complicated. The source code for scancel is nearly a thousand lines long! The API also seems to have just changed. So, let's just run scancel and be done with it.
2021-03-04SLURM: Add one to serial offsetsThomas White
They should start from 1, not 0.
2021-03-04SLURM: Set serial offset for indexamajig jobsThomas White
2021-03-04GUI: When starting indexing, prefix relative filenames with ../Thomas White
2021-03-04read_number_processed: Only look at end of log fileThomas White
2021-03-04SLURM: Clean up some exit pathsThomas White
2021-03-04start_slurm_job: Save the real stderr filenameThomas White
2021-03-04SLURM: Implement indexing progress monitoring for job arraysThomas White
2021-03-03GUI: Submit indexing jobs as job arrays, not individual jobsThomas White
2021-03-03SLURM: Remove unused stuffThomas White
2021-03-03SLURM: Add access to account and feature constraintsThomas White
2021-03-03SLURM: Factorise common options even moreThomas White
2021-03-03Add get_text_or_nullThomas White
2021-03-03SLURM: Factorise widget creation for common backend optionsThomas White
2021-03-02GUI: Add menu item to clear logThomas White
2021-03-02CrystFELImageView: Set limits on zoomingThomas White
2021-03-02GUI: Add tooltips to navigation buttonsThomas White
2021-03-02GUI: Add tooltips for peak search parametersThomas White
2021-03-01GUI: Fix counting of processed frames during indexingThomas White
2021-03-01Local BE: Write a script and run itThomas White
This easily gives us the stdout.log and stderr.log needed for monitoring the job.
2021-03-01GUI: Pass --peak-radius to indexamajigThomas White
Another one missed out before.
2021-03-01GUI: Pass --int-radius to indexamajigThomas White
Whoops - this was missed out before. This also reduces the precision displayed in the dialog box to reflect what is actually passed to indexamajig.
2021-03-01GUI: Add lots of tooltipsThomas White
2021-03-01GUI: Reject job names containing path separatorsThomas White
2021-03-01GUI: Fix some command-line options for indexamajigThomas White
2021-03-01GUI: Add history list for random image selectionThomas White
2021-02-26GUI: Automatically generate new job namesThomas White
2021-02-26Remove unused variablesThomas White
2021-02-26GUI: Delay connecting signals until entire import window is readyThomas White
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