rework lima.processing and include new lima hdf5 structure
Closes #1268 (closed) Closes #469 (closed) Closes #1314 (closed) Closes #1322 (closed) Closes #1383 (closed)
Closes #1268 (closed) Closes #469 (closed) Closes #1314 (closed) Closes #1322 (closed) Closes #1383 (closed)