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2023-05-17CI: Add deploy stageThomas White
2023-05-17CI: Add a missing blank lineThomas White
2023-05-17Add support for deployment on Maxwell.Parthasarathy Tirumalai
2023-05-12Add support for MacOS homebrew install test.Parthasarathy Tirumalai
2023-05-11Remove warning 'Cannot use adu_per_eV without image'Thomas White
The warning isn't helpful for users, but commit c2574910 causes it to appear many times on almost every indexamajig run. The best option is just to remove it.
2023-05-10Add CI build job for MacOS.Parthasarathy Tirumalai
2023-05-10Meson: Update Eigen wrapThomas White
Previously, compilation of some of CrystFEL's dependencies would break when using a version of Eigen previously installed by CrystFEL's own build system (i.e. by the Meson wrap for Eigen). This was because of a bug in the pkg-config file. The updated Eigen wrap includes a fix.
2023-05-05Formatting (fussiness)Thomas White
2023-05-05indexamajig: Catch common error '-i input.h5'Thomas White
2023-05-05list_events: Catch common error '-i input.h5'Thomas White
2023-05-05Move is_{hdf5,cbf,cbfgz}_file() to image.cThomas White
This also improves is_hdf5_file() to use the proper file signature, not just the extension. See 9040220452a9cc02706159c21c78e43b374446cf.
2023-05-05Move peak search parameters into separate structureThomas White
This change takes the peak parameters structure from gui_project.h, moves it to libcrystfel/peaks.h and uses it everywhere. It should slightly reduce the hassle involved with adding a new parameter. Four parameters (noisefilter, median_filter, check_hdf5_snr, use_saturated) were previously not part of the GUI project structure. Now they are, via the new structure. However, they are not yet exposed via the GUI and just take their default values.
2023-05-02Avoid unused variable if compiled without HAVE_SCHED_SETAFFINITYThomas White
2023-05-02indexamajig: Add --cpu-pinThomas White
Similar code was stripped out 3.5 years ago by 4f4e5d05269eee6b192c271f2f9730a1ad3a4fbd. However, it seems there are still systems where it improves performance a lot.
2023-05-02CI: Remove CMake jobThomas White
2023-05-02Remove image_write() and image_hdf5_write()Thomas White
This code isn't needed any more, now that we don't simulate images. It never worked very well - although we can read almost any sensible format, writing images that match an arbitrary schema is very difficult. See 41ed47a931e4c162c9a501981b6f19cd725f6e43 and https://gitlab.desy.de/thomas.white/crystfel/-/issues/81
2023-05-02Update INSTALL.mdThomas White
The NixOS PR for aarch64 was merged.
2023-05-02Update ChangeLogThomas White
2023-05-02Remove pattern_sim and partial_simThomas White
Use of these programs has been following this pattern for several years: 1. Neglect 2. Once yearly attempt by someone to use either tool 3. Discovery that it's totally broken 4. Bug report and fast bug fix 5. Go to 1. For more discussion, see the issue referenced below. Closes: https://gitlab.desy.de/thomas.white/crystfel/-/issues/81
2023-05-02Remove CMake build filesThomas White
It's already far behind parity with Meson, and getting worse.
2023-04-20compare_hkl: Recognise --fom=cc*, cc1/2 and cchalfThomas White
2023-04-20indexamajig(1): Mention "nproc"Thomas White
2023-04-20Revert "Refuse to overwrite an existing stream"Thomas White
This was intended to help users avoid accidents. However, it seems to trip people up a lot, and creates problems such as breaking Slurm job pre-emption (re-scheduled job fails because output already exists). This reverts commit 6db9619ba5172b9e416a5939d375f5119aa652ff.
2023-03-31Reject mask if good/bad bits are specified without locationThomas White
This should avoid surprises if the location is accidentally missed out.
2023-03-31Factorise p->masks[j]Thomas White
Just to avoid repetition
2023-03-31Reject unrecognised mask directivesThomas White
2023-03-03INSTALL.md: Mention containersThomas White
2023-03-03Update README.mdThomas White
2023-03-03libcrystfel: don't use fmemopen on aarch64-darwinPhilipp Middendorf
2023-03-02Merge branch 'get_hkl-input-fix' into 'master'Thomas White
get_hkl: fix --input long argument See merge request thomas.white/crystfel!9
2023-03-02get_hkl: fix --input long argumentPhilipp Middendorf
The help string indicated that get_hkl --input=foobar.hkl works, but it didn't.
2023-03-01Merge branch 'master' into 'master'Thomas White
Replace process_hkl_check_4 See merge request thomas.white/crystfel!7
2023-03-01process_hkl_check_4: Change temporary filenameParthasarathy Tirumalai
This test used "tempf.hkl", whereas process_hkl_check_1 used "tempF.hkl". This led to a race condition when running tests in parallel on an case-insensitive filesystem (Mac).
2023-03-01Remove HAVE_SLURMThomas White
Not used any more, since a4c786d52613063d338ee010f4415e8a6aef0513
2023-03-01INSTALL.md: Mention NixOSThomas White
2023-03-01INSTALL.md: Improve GTK informationThomas White
2023-03-01Remove vestigial geoptimiser stuffThomas White
2023-02-24GUI: Avoid using format string for reminder windowThomas White
2023-02-20This is CrystFEL 0.10.20.10.2Thomas White
2023-02-20Fix small manual problemsThomas White
2023-02-20GUI: Update copyright dateThomas White
2023-02-20Update README.mdThomas White
2023-02-20speed.rst: Fix a typoThomas White
2023-02-17speed.rst: Fix some line breaksThomas White
2023-02-17Update speed.rstThomas White
2023-02-17asdf: Restrict domain for search for peaks in frequency graphAlexandra Tolstikova
Previously, it was possible for the search to run over the part of the array initialised by FFTW.
2023-02-17image_read_peaks: Fix a typoThomas White
2023-02-17indexamajig(1): Update text and fix untruthsThomas White
2023-02-17GUI: Automatically set appropriate extension for export filenameThomas White
2023-02-17strip_extension: Handle short strings betterThomas White
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