I’m having the same issue along with a host of others, I was at cryosparc 2.6.1 and it was upgraded after a cryosparcm stop/start and reboot of the system but I get this issue.
Traceback (most recent call last):
File “cryosparc2_worker/cryosparc2_compute/run.py”, line 72, in cryosparc2_compute.run.main
File “cryosparc2_compute/jobs/jobregister.py”, line 337, in get_run_function
runmod = importlib.import_module("…"+modname, name)
File “/opt/packages/cryosparc/cryosparc2_worker/deps/anaconda/lib/python2.7/importlib/init.py”, line 37, in import_module
import(name)
File “cryosparc2_worker/cryosparc2_compute/jobs/rtp_workers/run.py”, line 20, in init cryosparc2_compute.jobs.rtp_workers.run
File “cryosparc2_worker/cryosparc2_compute/jobs/motioncorrection/motioncorrection.py”, line 8, in init cryosparc2_compute.jobs.motioncorrection.motioncorrection
File “cryosparc2_compute/engine/init.py”, line 8, in
from engine import *
File “cryosparc2_worker/cryosparc2_compute/engine/engine.py”, line 17, in init cryosparc2_compute.engine.engine
File “cryosparc2_compute/fourier.py”, line 22, in
from numba import autojit
ImportError: cannot import name autojit
So I re-installed cryosparc3 and reinstalled nvidia 440.82 drivers and cuda 10.2 toolkits. Then the main error I get when running a live session is the following
Traceback (most recent call last):
File "cryosparc_worker/cryosparc_compute/jobs/rtp_workers/run.py", line 356, in cryosparc_compute.jobs.rtp_workers.run.rtp_worker
File "cryosparc_worker/cryosparc_compute/jobs/rtp_workers/run.py", line 417, in cryosparc_compute.jobs.rtp_workers.run.process_movie
File "cryosparc_worker/cryosparc_compute/jobs/rtp_workers/run.py", line 561, in cryosparc_compute.jobs.rtp_workers.run.do_patch_motion
File "cryosparc_worker/cryosparc_compute/jobs/rtp_workers/run.py", line 566, in cryosparc_compute.jobs.rtp_workers.run.do_patch_motion
File "cryosparc_worker/cryosparc_compute/jobs/motioncorrection/patchmotion.py", line 251, in cryosparc_compute.jobs.motioncorrection.patchmotion.unbend_motion_correction
File "cryosparc_worker/cryosparc_compute/jobs/motioncorrection/patchmotion.py", line 371, in cryosparc_compute.jobs.motioncorrection.patchmotion.unbend_motion_correction
File "cryosparc_worker/cryosparc_compute/engine/cuda_core.py", line 339, in cryosparc_compute.engine.cuda_core.EngineBaseThread.ensure_allocated
File "/opt/packages/cryosparc/cryosparc_worker/deps/anaconda/envs/cryosparc_worker_env/lib/python3.7/site-packages/pycuda/gpuarray.py", line 210, in __init__
self.gpudata = self.allocator(self.size * self.dtype.itemsize)
pycuda._driver.MemoryError: cuMemAlloc failed: out of memory
I ran the mentioned command in this thread as well.
lscpu && free -g && uname -a
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
CPU(s): 48
On-line CPU(s) list: 0-47
Thread(s) per core: 2
Core(s) per socket: 12
Socket(s): 2
NUMA node(s): 2
Vendor ID: GenuineIntel
CPU family: 6
Model: 85
Model name: Intel® Xeon® Silver 4116 CPU @ 2.10GHz
Stepping: 4
CPU MHz: 800.008
BogoMIPS: 4200.00
Virtualization: VT-x
L1d cache: 32K
L1i cache: 32K
L2 cache: 1024K
L3 cache: 16896K
NUMA node0 CPU(s): 0,2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46
NUMA node1 CPU(s): 1,3,5,7,9,11,13,15,17,19,21,23,25,27,29,31,33,35,37,39,41,43,45,47
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush dts acpi mmx fxsr sse sse2 ss ht tm pbe syscall nx pdpe1gb rdtscp lm constant_tsc art arch_perfmon pebs bts rep_good nopl xtopology nonstop_tsc cpuid aperfmperf pni pclmulqdq dtes64 monitor ds_cpl vmx smx est tm2 ssse3 sdbg fma cx16 xtpr pdcm pcid dca sse4_1 sse4_2 x2apic movbe popcnt tsc_deadline_timer aes xsave avx f16c rdrand lahf_lm abm 3dnowprefetch cpuid_fault epb cat_l3 cdp_l3 invpcid_single pti intel_ppin ssbd mba ibrs ibpb stibp tpr_shadow vnmi flexpriority ept vpid ept_ad fsgsbase tsc_adjust bmi1 hle avx2 smep bmi2 erms invpcid rtm cqm mpx rdt_a avx512f avx512dq rdseed adx smap clflushopt clwb intel_pt avx512cd avx512bw avx512vl xsaveopt xsavec xgetbv1 xsaves cqm_llc cqm_occup_llc cqm_mbm_total cqm_mbm_local dtherm ida arat pln pts pku ospke md_clear flush_l1d
total used free shared buff/cache available
Mem: 282 36 134 0 111 244
Swap: 1 0 1
Linux 5.4.0-65-generic #73~18.04.1-Ubuntu SMP Tue Jan 19 09:02:24 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux
dmidecode --type memory
dmidecode 3.1
Getting SMBIOS data from sysfs.
SMBIOS 3.0.0 present.
Handle 0x1000, DMI type 16, 23 bytes
Physical Memory Array
Location: System Board Or Motherboard
Use: System Memory
Error Correction Type: Multi-bit ECC
Maximum Capacity: 3 TB
Error Information Handle: Not Provided
Number Of Devices: 24
Handle 0x1100, DMI type 17, 40 bytes
Memory Device
Array Handle: 0x1000
Error Information Handle: Not Provided
Total Width: 72 bits
Data Width: 64 bits
Size: 16384 MB
Form Factor: DIMM
Set: 1
Locator: A1
Bank Locator: Not Specified
Type: DDR4
Type Detail: Synchronous Registered (Buffered)
Speed: 2666 MT/s
Manufacturer: 00AD00B300AD
Serial Number: 520C8E4F
Asset Tag: 01173851
Part Number: HMA82GR7AFR8N-VK
Rank: 2
Configured Clock Speed: 2400 MT/s
Minimum Voltage: 1.2 V
Maximum Voltage: 1.2 V
Configured Voltage: 1.2 V