Remove absolute paths and redundant file references #13
Description
- Several experiment list files contain references to image file templates and/or mask files that refer to an absolute path.
- In some cases, the file name doesn't match the example image/mask files in the same directory, presumably the intended target of these references.
- In some cases, there is no matching file uploaded.
The latter two points aren't necessarily a problem until/unless someone writes a test that queries the linked mask/image file(s), but it seems sensible to make the uploaded data consistent and complete where possible, to avoid future test-writers getting caught out.
Examples:
$ grep -r "Users\|home"
l_cysteine_integrated/30_integrated_experiments.json: "template": "/Users/graeme/data/i19-1/l-cyst/l-cyst_02_#####.cbf",
l_cysteine_integrated/30_integrated_experiments.json: "mask": "/Users/graeme/Projects/l-cys/DEFAULT/NATIVE/SWEEP1/index/hot_mask_0.pickle",
l_cysteine_integrated/25_integrated_experiments.json: "template": "/Users/graeme/data/i19-1/l-cyst/l-cyst_01_#####.cbf",
l_cysteine_integrated/25_integrated_experiments.json: "mask": "/Users/graeme/Projects/l-cys/DEFAULT/NATIVE/SWEEP1/index/hot_mask_0.pickle",
l_cysteine_integrated/35_integrated_experiments.json: "template": "/Users/graeme/data/i19-1/l-cyst/l-cyst_03_#####.cbf",
l_cysteine_integrated/35_integrated_experiments.json: "mask": "/Users/graeme/Projects/l-cys/DEFAULT/NATIVE/SWEEP1/index/hot_mask_0.pickle",
l_cysteine_integrated/20_integrated_experiments.json: "template": "/Users/graeme/data/i19-1/l-cyst/l-cyst_04_#####.cbf",
l_cysteine_integrated/20_integrated_experiments.json: "mask": "/Users/graeme/Projects/l-cys/DEFAULT/NATIVE/SWEEP1/index/hot_mask_0.pickle",
pdteet-2-lattice/sweep-04/indexed.expt: "template": "/Users/graeme/data/i19-1-double-PdTEET/PdTEET_04_#####.cbf.gz",
l_cysteine_4_sweeps_scaled/scaled_20_25.expt: "template": "/Users/graeme/data/i19-1/l-cyst/l-cyst_04_#####.cbf",
l_cysteine_4_sweeps_scaled/scaled_20_25.expt: "mask": "/Users/graeme/Projects/l-cys/DEFAULT/NATIVE/SWEEP1/index/hot_mask_0.pickle",
l_cysteine_4_sweeps_scaled/scaled_20_25.expt: "template": "/Users/graeme/data/i19-1/l-cyst/l-cyst_01_#####.cbf",
l_cysteine_4_sweeps_scaled/scaled_20_25.expt: "mask": "/Users/graeme/Projects/l-cys/DEFAULT/NATIVE/SWEEP1/index/hot_mask_0.pickle",
l_cysteine_4_sweeps_scaled/scaled_30.expt: "template": "/Users/graeme/data/i19-1/l-cyst/l-cyst_02_#####.cbf",
l_cysteine_4_sweeps_scaled/scaled_30.expt: "mask": "/Users/graeme/Projects/l-cys/DEFAULT/NATIVE/SWEEP1/index/hot_mask_0.pickle",
l_cysteine_4_sweeps_scaled/scaled_35.expt: "template": "/Users/graeme/data/i19-1/l-cyst/l-cyst_03_#####.cbf",
l_cysteine_4_sweeps_scaled/scaled_35.expt: "mask": "/Users/graeme/Projects/l-cys/DEFAULT/NATIVE/SWEEP1/index/hot_mask_0.pickle",
centroid_test_data/INTEGRATE.HKL:!NAME_TEMPLATE_OF_DATA_FRAMES=/Users/graeme/data/RU/1/X4_lots_M1S4_1_0???.cbf CB