Cryosparc Version: 4.2.1
output of icli:
[(t[‘name’], t.get(‘cache_path’, ‘no_cache’)) for t in cli.get_scheduler_targets()]
Out[1]:
[(‘hpcl8001’, ‘/fs/pool/pool-briggs-scratch/cryosparc’),
(‘hpcl8002’, ‘/fs/pool/pool-briggs-scratch/cryosparc’),
(‘hpcl8003’, ‘/fs/pool/pool-briggs-scratch/cryosparc’),
(‘hpcl8004’, ‘/fs/pool/pool-briggs-scratch/cryosparc’),
(‘hpcl9001’, ‘/fs/pool/pool-briggs-scratch/cryosparc’),
(‘hpcl9002’, ‘/fs/pool/pool-briggs-scratch/cryosparc’),
(‘hpcl7001’, ‘/fs/pool/pool-briggs-scratch/cryosparc’),
(‘hpcl5005’, ‘/fs/pool/pool-briggs-scratch/cryosparc’),
(‘hpcl5007’, ‘/fs/pool/pool-briggs-scratch/cryosparc’),
(‘hpcl5008’, ‘/fs/pool/pool-briggs-scratch/cryosparc’),
(‘hpcl5010’, ‘/fs/pool/pool-briggs-scratch/cryosparc’)]
/fs/pool/pool-briggs-scratch/cryosparc is shared between workers.
Failed Job event log
P84 J875: Ab-Initio Reconstruction
CryoSPARC Running Version: v4.2.1
Project Details
±----------------±----------------------------------------+
| DETAIL | VALUE |
±----------------±----------------------------------------+
| Title | SARS-CoV2_Matrix |
±----------------±----------------------------------------+
| Description | All the lovely and deadly CoV2 variants |
±----------------±----------------------------------------+
| ID | P84 |
±----------------±----------------------------------------+
| Created by user | U20F U20L |
±----------------±----------------------------------------+
Job Details
±----------------±-----------------------------------------------------------------+
| DETAIL | VALUE |
±----------------±-----------------------------------------------------------------+
| Title | New Job J875 |
±----------------±-----------------------------------------------------------------+
| Description | Enter a description. |
±----------------±-----------------------------------------------------------------+
| ID | J875 |
±----------------±-----------------------------------------------------------------+
| Job type | Ab-Initio Reconstruction |
±----------------±-----------------------------------------------------------------+
| Status | failed |
±----------------±-----------------------------------------------------------------+
| Created by user | U20F U20L |
±----------------±-----------------------------------------------------------------+
| Created | Fri Jun 30 2023 15:00:27 GMT+0200 (Central European Summer Time) |
±----------------±-----------------------------------------------------------------+
| Queued | Fri Jun 30 2023 15:01:34 GMT+0200 (Central European Summer Time) |
±----------------±-----------------------------------------------------------------+
| Launched | Fri Jun 30 2023 15:01:35 GMT+0200 (Central European Summer Time) |
±----------------±-----------------------------------------------------------------+
| Started | Fri Jun 30 2023 15:01:43 GMT+0200 (Central European Summer Time) |
±----------------±-----------------------------------------------------------------+
| Waiting | - |
±----------------±-----------------------------------------------------------------+
| Killed | - |
±----------------±-----------------------------------------------------------------+
| Completed | - |
±----------------±-----------------------------------------------------------------+
| Failed | Fri Jun 30 2023 15:36:43 GMT+0200 (Central European Summer Time) |
±----------------±-----------------------------------------------------------------+
| Last accessed | Tue Jul 11 2023 10:38:29 GMT+0200 (Central European Summer Time) |
±----------------±-----------------------------------------------------------------+
| Size | 0 Bytes |
±----------------±-----------------------------------------------------------------+
Inputs
particles
J874.split_0
±--------------------+
| BLOB |
±--------------------+
| J874.split_0.blob.F |
±--------------------+
±-------------------+
| CTF |
±-------------------+
| J874.split_0.ctf.F |
±-------------------+
±----------------------------+
| PASSTHROUGH |
±----------------------------+
| J874.split_0.location.F |
±----------------------------+
| J874.split_0.alignments2D.F |
±----------------------------+
Parameters
Particle preprocessing
±----------------------------±------±--------±-----±---------+
| PARAMETER | VALUE | DEFAULT | SPEC | ADVANCED |
±----------------------------±------±--------±-----±---------+
| Window dataset (real-space) | Set | X | X | |
±----------------------------±------±--------±-----±---------+
| Window inner radius | 0.85 | X | X | X |
±----------------------------±------±--------±-----±---------+
| Window outer radius | 0.99 | X | X | X |
±----------------------------±------±--------±-----±---------+
Ab-Initio reconstruction
±-------------------------------------------±----------±--------±-----±---------+
| PARAMETER | VALUE | DEFAULT | SPEC | ADVANCED |
±-------------------------------------------±----------±--------±-----±---------+
| Number of Ab-Initio classes | 1 | | | |
±-------------------------------------------±----------±--------±-----±---------+
| Num particles to use | Not Set | X | X | |
±-------------------------------------------±----------±--------±-----±---------+
| Maximum resolution (Angstroms) | 12 | X | X | |
±-------------------------------------------±----------±--------±-----±---------+
| Initial resolution (Angstroms) | 35 | X | X | |
±-------------------------------------------±----------±--------±-----±---------+
| Number of initial iterations | 200 | | | X |
±-------------------------------------------±----------±--------±-----±---------+
±-------------------------------------------±----------±--------±-----±---------+
| Number of final iterations | 300 | | | X |
±-------------------------------------------±----------±--------±-----±---------+
| Fourier radius step | 0.04 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Window structures in real space | Set | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Center structures in real space | Set | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Correct for per-micrograph optimal scales | Not set | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Compute per-image optimal scales | Not set | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| SGD Momentum | 0 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Sparsity prior | 0 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Initial minibatch size | 90 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Final minibatch size | 300 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Abinit minisize epsilon | 0.05 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Abinit minisize minp | 0.01 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Initial minibatch size num iters | 300 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Noise model (white, symmetric or coloured) | symmetric | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Noise priorw | 50 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Noise initw | 5000 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Noise initial sigma-scale | Not Set | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Class similarity | 0.1 | X | X | |
±-------------------------------------------±----------±--------±-----±---------+
| Class similarity anneal start iter | 300 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Class similarity anneal end iter | 350 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Target 3D ESS Fraction | 0.011 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Symmetry | C1 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Initial learning rate duration | 100 | | | X |
±-------------------------------------------±----------±--------±-----±---------+
| Initial learning rate | 0.4 | | | X |
±-------------------------------------------±----------±--------±-----±---------+
| Enforce non-negativity | Set | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Ignore DC component | Set | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Initial structure random seed | Not Set | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Initial structure lowpass (Fourier radius) | 7 | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Use fast codepaths | Set | X | X | X |
±-------------------------------------------±----------±--------±-----±---------+
| Show plots from intermediate steps | Set | X | X | |
±-------------------------------------------±----------±--------±-----±---------+
Random seeds
±------------±--------±--------±-----±---------+
| PARAMETER | VALUE | DEFAULT | SPEC | ADVANCED |
±------------±--------±--------±-----±---------+
| Random seed | Not Set | X | X | X |
±------------±--------±--------±-----±---------+
Compute settings
±-----------------------------±------±--------±-----±---------+
| PARAMETER | VALUE | DEFAULT | SPEC | ADVANCED |
±-----------------------------±------±--------±-----±---------+
| Cache particle images on SSD | Set | X | X | |
±-----------------------------±------±--------±-----±---------+
Outputs
particles_all_classes
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS_CLASS_0 |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±---------------------------+
| ALIGNMENTS_CLASS_1 |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±---------------------------+
| ALIGNMENTS_CLASS_2 |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±---------------------------+
| ALIGNMENTS_CLASS_3 |
±---------------------------+
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±---------------------------+
| ALIGNMENTS_CLASS_4 |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±---------------------------+
| ALIGNMENTS_CLASS_5 |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±---------------------------+
| ALIGNMENTS_CLASS_6 |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±---------------------------+
| ALIGNMENTS_CLASS_7 |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±---------------------------+
| ALIGNMENTS_CLASS_8 |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±---------------------------+
| ALIGNMENTS_CLASS_9 |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
particles_class_0
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS3D |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
volume_class_0
±-----------------+
| MAP |
±-----------------+
| J875.volume.blob |
±-----------------+
particles_class_1
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS3D |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
±---------------------------+
volume_class_1
±-----------------+
| MAP |
±-----------------+
| J875.volume.blob |
±-----------------+
particles_class_2
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS3D |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
volume_class_2
±-----------------+
| MAP |
±-----------------+
| J875.volume.blob |
±-----------------+
particles_class_3
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS3D |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
volume_class_3
±-----------------+
| MAP |
±-----------------+
| J875.volume.blob |
±-----------------+
particles_class_4
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS3D |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
±---------------------------+
volume_class_4
±-----------------+
| MAP |
±-----------------+
| J875.volume.blob |
±-----------------+
particles_class_5
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS3D |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
volume_class_5
±-----------------+
| MAP |
±-----------------+
| J875.volume.blob |
±-----------------+
particles_class_6
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS3D |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
volume_class_6
±-----------------+
| MAP |
±-----------------+
| J875.volume.blob |
±-----------------+
particles_class_7
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS3D |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
±---------------------------+
volume_class_7
±-----------------+
| MAP |
±-----------------+
| J875.volume.blob |
±-----------------+
particles_class_8
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS3D |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
volume_class_8
±-----------------+
| MAP |
±-----------------+
| J875.volume.blob |
±-----------------+
particles_class_9
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±---------------------------+
| ALIGNMENTS3D |
±---------------------------+
| J875.particle.alignments3D |
±---------------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
volume_class_9
±-----------------+
| MAP |
±-----------------+
| J875.volume.blob |
±-----------------+
particles_unused
±-------------------+
| BLOB |
±-------------------+
| J875.particle.blob |
±-------------------+
±------------------+
| CTF |
±------------------+
| J875.particle.ctf |
±------------------+
±-----------------------+
| LOCATION (PASSTHROUGH) |
±-----------------------+
| J875.particle.location |
±-----------------------+
±---------------------------+
| ALIGNMENTS2D (PASSTHROUGH) |
±---------------------------+
| J875.particle.alignments2D |
±---------------------------+
Target
hpcl9002 (node)
[2023-06-30 15:01:35.84] License is valid.
[2023-06-30 15:01:35.84] Launching job on lane h9002-chkGPU target hpcl9002 …
[2023-06-30 15:01:35.90] Running job on remote worker node hostname hpcl9002
[2023-06-30 15:01:43.63] [CPU: 170.3 MB] [Avail: 986.95 GB] Job J875 Started
[2023-06-30 15:01:43.69] [CPU: 170.5 MB] [Avail: 986.95 GB] Master running v4.2.1, worker running v4.2.1
[2023-06-30 15:01:43.72] [CPU: 170.5 MB] [Avail: 986.95 GB] Working in directory: /fs/pool/pool-cryosparc/users/user20/P84/J875
[2023-06-30 15:01:43.73] [CPU: 170.5 MB] [Avail: 986.95 GB] Running on lane h9002-chkGPU
[2023-06-30 15:01:43.73] [CPU: 170.5 MB] [Avail: 986.95 GB] Resources allocated:
[2023-06-30 15:01:43.74] [CPU: 170.5 MB] [Avail: 986.94 GB] Worker: hpcl9002
[2023-06-30 15:01:43.74] [CPU: 170.5 MB] [Avail: 986.94 GB] CPU : [4, 5]
[2023-06-30 15:01:43.74] [CPU: 170.5 MB] [Avail: 986.94 GB] GPU : [1]
[2023-06-30 15:01:43.75] [CPU: 170.5 MB] [Avail: 986.94 GB] RAM : [3]
[2023-06-30 15:01:43.75] [CPU: 170.5 MB] [Avail: 986.94 GB] SSD : True
[2023-06-30 15:01:43.76] [CPU: 170.5 MB] [Avail: 986.94 GB] --------------------------------------------------------------
[2023-06-30 15:01:43.76] [CPU: 170.5 MB] [Avail: 986.94 GB] Importing job module for job type homo_abinit…
[2023-06-30 15:01:47.28] [CPU: 255.4 MB] [Avail: 986.84 GB] Job ready to run
[2023-06-30 15:01:47.29] [CPU: 255.4 MB] [Avail: 986.84 GB] ***************************************************************
[2023-06-30 15:01:47.76] [CPU: 303.8 MB] [Avail: 986.79 GB] Using random seed for sgd of 269567159
[2023-06-30 15:01:47.77] [CPU: 313.6 MB] [Avail: 986.78 GB] Loading a ParticleStack with 100000 items…
[2023-06-30 15:01:50.25] [CPU: 313.7 MB] [Avail: 986.79 GB] SSD cache : cache successfully synced in_use
[2023-06-30 15:03:04.52] [CPU: 356.0 MB] [Avail: 986.08 GB] SSD cache : cache successfully synced, found 17753061.65MB of files
on SSD.
[2023-06-30 15:03:07.74] [CPU: 356.0 MB] [Avail: 986.10 GB] SSD cache : cache successfully requested to check 2984 files.
[2023-06-30 15:03:11.56] [CPU: 356.0 MB] [Avail: 986.12 GB] SSD cache : cache requires 229.79MB more on the SSD for files to be
downloaded.
[2023-06-30 15:03:37.89] [CPU: 356.0 MB] [Avail: 986.16 GB] SSD cache : cache has enough available space.
[2023-06-30 15:03:37.90] [CPU: 356.0 MB] [Avail: 986.16 GB] Transferring
J244/extract/012702829538677884369_FoilHole_5257542_Data_3069349_30
69351_20211106_002759_EER_particles.mrc (1 MB) (2029/2984)? Comple
te : 230 MB (1.19%)? Total : 19314 MB
? Current Speed : 26.15 MB/s? Average Speed : 58.94 MB/
s? ETA : 0h 5m 23s
[2023-06-30 15:03:41.98] [CPU: 356.0 MB] [Avail: 986.11 GB] SSD cache : complete, all requested files are available on SSD.
[2023-06-30 15:04:09.73] [CPU: 388.1 MB] [Avail: 986.04 GB] Done.
[2023-06-30 15:04:09.74] [CPU: 388.2 MB] [Avail: 986.04 GB] Windowing particles
[2023-06-30 15:04:09.74] [CPU: 388.2 MB] [Avail: 986.04 GB] Done.
[2023-06-30 15:04:09.75] [CPU: 388.2 MB] [Avail: 986.04 GB] Using 10 classes.
[2023-06-30 15:04:09.85] [CPU: 483.3 MB] [Avail: 985.95 GB] Computing Ab-Initio Structure:
[2023-06-30 15:04:09.85] [CPU: 483.3 MB] [Avail: 985.95 GB] Volume Size: 64 (voxel size
…
6.819 S: 8.979 Class Size: 11.3% (Average: 13.9%)
[2023-06-30 15:36:40.73] [CPU: 1.19 GB] [Avail: 985.07 GB] – Class 8 – lr: 0.20 eps: 5.52 step ratio : 0.4091 ESS R:
6.960 S: 9.072 Class Size: 11.5% (Average: 10.6%)
[2023-06-30 15:36:40.75] [CPU: 1.19 GB] [Avail: 985.07 GB] – Class 9 – lr: 0.20 eps: 5.52 step ratio : 0.2611 ESS R:
9.060 S: 9.712 Class Size: 4.7% (Average: 8.4%)
[2023-06-30 15:36:41.69] [CPU: 1.21 GB] [Avail: 985.07 GB] Done iteration 00507 of 01379 in 6.153s. Total time 1948.1s. Est
time remaining 5868.6s.
[2023-06-30 15:36:41.74] [CPU: 1.21 GB] [Avail: 985.07 GB] ----------- Iteration 508 (epoch 0.897). radwn 18.32 resolution
13.00A minisize 300 beta 0.00
[2023-06-30 15:36:43.88] [CPU: 1.13 GB] [Avail: 985.13 GB] Traceback (most recent call last):? File
“cryosparc_master/cryosparc_compute/run.py”, line 96, in
cryosparc_compute.run.main? File
“cryosparc_master/cryosparc_compute/jobs/abinit/run.py”, line 309,
in cryosparc_compute.jobs.abinit.run.run_homo_abinit? File
“cryosparc_master/cryosparc_compute/engine/engine.py”, line 1142,
in cryosparc_compute.engine.engine.process? File
“cryosparc_master/cryosparc_compute/engine/engine.py”, line 1143,
in cryosparc_compute.engine.engine.process? File
“cryosparc_master/cryosparc_compute/engine/engine.py”, line 1028,
in cryosparc_compute.engine.engine.process.work? File
“cryosparc_master/cryosparc_compute/engine/engine.py”, line 87, in
cryosparc_compute.engine.engine.EngineThread.load_image_data_gpu?
File
“/fs/gpfs41/lv07/fileset02/home/b_baumei/cryosparcuser/csV4.2.1/cry
osparc_worker_hpcl900x/cryosparc_compute/particles.py”, line 33, in
get_original_real_data? return self.blob.view().copy()? File "
/fs/gpfs41/lv07/fileset02/home/b_baumei/cryosparcuser/csV4.2.1/cryo
sparc_worker_hpcl900x/cryosparc_compute/blobio/mrc.py", line 127, i
n view? return self.get()? File “/fs/gpfs41/lv07/fileset02/home
/b_baumei/cryosparcuser/csV4.2.1/cryosparc_worker_hpcl900x/cryospar
c_compute/blobio/mrc.py”, line 122, in get? _, data, total_time
= prefetch.synchronous_native_read(self.fname, idx_start = self.pag
e, idx_limit = self.page+1)? File “cryosparc_master/cryosparc_comp
ute/blobio/prefetch.py”, line 68, in cryosparc_compute.blobio.prefe
tch.synchronous_native_read?RuntimeError: Error ocurred (No such fi
le or directory) at line 548 in fopen??Could not open file. Make su
re the path exists.??IO request details:?filename: /fs/pool/pool
-briggs-scratch/cryosparc/instance_brcryosparc:38001/projects/P84/J
244/extract/017623285098820666075_FoilHole_6220816_Data_3069346_306
9348_20211106_022130_EER_particles.mrc?filetype: 0?header_only:
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