I am new in the cryoSparc community. So please excuse maybe simple questions:
I aim to import picked particle files from Warp into cryoSparc.
In Warp a folder named particles is created within the project folder containing the particle stacks (e.g. FoilHole_13710868_Data_13719033_13719035_20200314_160404_Fractions_BoxNet2Mask_20180918.mrcs)
Outside this folder a star file is written: goodparticles_BoxNet2Mask_20180918.star with the content below:
loop_ _rlnCoordinateX #1 _rlnCoordinateY #2 _rlnMagnification #3 _rlnDetectorPixelSize #4 _rlnVoltage #5 _rlnSphericalAberration #6 _rlnAmplitudeContrast #7 _rlnPhaseShift #8 _rlnDefocusU #9 _rlnDefocusV #10 _rlnDefocusAngle #11 _rlnCtfMaxResolution #12 _rlnImageName #13 _rlnMicrographName #14 505.78 171.57 10000.0 1.22400 200.0 2.7000 0.100 0.0 19096.5 19082.9 73.0 7.0 0000001@particles/FoilHole_12686392_Data_13719033_13719035_20200315_005503_Fractions_BoxNet2Mask_20180918.mrcs FoilHole_12686392_Data_13719033_13719035_20200315_005503_Fractions.mrc
I placed .star and all mrcs in one project folder and tried to import them into cryosparc with given particle data path (mrcs) and meta data path (star) with the following error message:
[CPU: 341.6 MB] Reading particle data locations... [CPU: 341.6 MB] Reading rlnImageName to get indices and paths.. [CPU: 510.1 MB] Warning: Parameter particle_blob_path was set, which overrides rlnImageName despite the latter being present in the input star file. [CPU: 510.1 MB] Traceback (most recent call last): File "cryosparc2_master/cryosparc2_compute/run.py", line 78, in cryosparc2_compute.run.main File "cryosparc2_compute/jobs/imports/run.py", line 106, in run_import_particles assert os.path.isdir(far_blob_path), "Parameter particle_blob_path was set but is not a file or a directory." AssertionError: Parameter particle_blob_path was set but is not a file or a directory.
Can someone give me advice?