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This requires changing all the paths to relative ones.
Previously, the jobs ran with their CWDs set to the corresponding
"result" folder. The trouble is, this breaks everything that uses a
relative location: image filenames, mask/satmap files referenced by the
geometry, etc.
Note that this change also means that the temporary folders
("indexamajig.XXX") are now produced in the top-level working directory.
Eventually, a GUI option should be added to allow these folders to be
put somewhere better (i.e. somewhere fast).
Closes: https://gitlab.desy.de/thomas.white/crystfel/-/issues/44
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This simplifies the backends somewhat, and makes them look more similar
- e.g. there is now only one routine to find out how far along a merging
job is. It has the added bonus of adding a log file for local jobs,
which we would've had to add soon anyway.
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A single command line is not expressive enough for at least two cases:
process_hkl, which needs to be run two extra times to generate the splits,
and ambigator, which needs to have its input streams concatenated first.
This also splits out the routine for creating the working folder and
writing the notes file.
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