Hello,
I set the paths for my deep Enhancer job, but every time that I run it, I face this error:
Subprocess existed with status -11 …
Can anyone help me how I can fix this?
Hello,
I set the paths for my deep Enhancer job, but every time that I run it, I face this error:
Subprocess existed with status -11 …
Can anyone help me how I can fix this?
I added a picture of it, thank you!
Please post the text (to facilitate searches of the forum) of the error message in the picture, and text of relevant entries in the job log.
double check the path(s). inside /opt/miniconda3/envs/deepEMhancer_env/lib are there three files for tightTarget, highRes, and wideTarget? do you need a slash after lib? What happens if you provide a mask and set mask type to 2 (areas outside mask set to 0)? This will ignore the 3 “types” of mask generation above.
Thank you!
I still face this error:
Traceback (most recent call last):
File “cryosparc_master/cryosparc_compute/run.py”, line 93, in cryosparc_compute.run.main
File “/opt/cryosparc3/cryosparc_worker/cryosparc_compute/jobs/deepemhancer/run.py”, line 158, in run_deepemhancer_wrapper
assert process.returncode == 0, f"Subprocess exited with status {process.returncode} ({str_command})"
AssertionError: Subprocess exited with status 1 (/opt/miniconda3/envs/deepEMhancer_env/bin/deepemhancer -i /data/data_jylee/femr_202112_krios/P3/J349/map_half_A_filtered.mrc -i2 /data/data_jylee/femr_202112_krios/P3/J349/map_half_B_filtered.mrc -o /data/data_jylee/femr_202112_krios/P3/J349/J349_map_sharp.mrc -g 1 --deepLearningModelPath /home/jyleelab/Desktop/deepEMhancerModels/production_checkpoints/deepEMhancer_tightTarget.hd5 -p wideTarget)
This is a new error that I get every time, I run it:
Traceback (most recent call last):
File “cryosparc_master/cryosparc_compute/run.py”, line 93, in cryosparc_compute.run.main
File “/opt/cryosparc3/cryosparc_worker/cryosparc_compute/jobs/deepemhancer/run.py”, line 158, in run_deepemhancer_wrapper
assert process.returncode == 0, f"Subprocess exited with status {process.returncode} ({str_command})"
AssertionError: Subprocess exited with status 1 (/opt/miniconda3/envs/deepEMhancer_env/bin/deepemhancer -i /data/data_jylee/femr_202112_krios/P3/J349/map_half_A_filtered.mrc -i2 /data/data_jylee/femr_202112_krios/P3/J349/map_half_B_filtered.mrc -o /data/data_jylee/femr_202112_krios/P3/J349/J349_map_sharp.mrc -g 1 --deepLearningModelPath /home/jyleelab/Desktop/deepEMhancerModels/production_checkpoints/deepEMhancer_tightTarget.hd5 -p wideTarget)
to be sure, are you filling out both the path to the executable AND a different path to the folder containing the 3 models? wtempel wants you to go the log of the job and post that text so they can see more information than just the error message.
I filled both paths. But unfortunately still got this error. I will post the log tomorrow.
Does deepEMhancer run successfully with the same parameters outside of cryoSPARC?