Missing or inaccessable data.

[morriscb]

After attempting to reprocess some of the LearningmFISH experiments listed in mFISH_experiments_for_motion_corr_220914.csv I encountered a hand full of experiments that have missing data or data that is potentially incorrectly formatted and can't be input to the suite2p_motion_correction LIMS queue. These are in addition to the typing failures found in #90.

The failures land in a few categories.

Raw movie h5 file exists but LIMS ruby strategy cannot retrieve it: 1194976385, 1194976387, 1194976388, 1194976390, 1194976393, 1194976394, 1194976391 These ids are all from the omFISHGad2Meso project.

Similar to above. The experiment 1168151035 seems to have a well formed h5 raw movie file, however the QUEUE attempts to find the movie as the file 1168151035_dewarping.h5 when it is stored as 1168151035.h5.

The experiments 1194976396, 1178616895, 1178616898, 1178616901 appear to have no h5 file stored on disk in the LIMS working directory.

The following experiments have a h5 file that exists, but the file contains an empty data array of shape (0, 512, 512): 1166016598, 1166254068, 1166016598. These are all on the VipSomaticV1Phase1 project.

Finally, these experiments are missing values for movie_frame_rate_hz, that is the LIMS strategy does not add this value to the json file that is input to the python executable. 1188686871, 1188687864. Again these are from the VipSomaticV1Phase1 project.

[matchings]

LIMS is deprecated. closing.