Job is finished!
==> Total residues: 2516, stages: 1
sending incremental file list
./
input.json

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3.11K 100% 0.00kB/s 0:00:00 (xfr#1, to-chk=4/6)
input.map

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81.20M 46% 77.44MB/s 0:00:01
174.46M 100% 85.06MB/s 0:00:01 (xfr#2, to-chk=3/6)
msa/
msa/prot/
msa/prot/prot.fasta

2.54K 100% 2.57kB/s 0:00:00
2.54K 100% 2.57kB/s 0:00:00 (xfr#3, to-chk=0/6)
Connection established.
INFO: cd /scratch/negishi/dklab/em-server/working/817776499505e9050a736da45145cdd3/scratch/msa/prot/ && sbatch -J msa_prot_817776499505e9050a736da45145cdd3 --parsable /depot/dkihara/data/dklab/em-server/pkgs/CryoZeta/helper/x-mmseqs.sh prot.fasta

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
Remaining active jobs: ['40069891']

--- Monitoring 1 jobs: ['40069891'] ---
[prot_MSA] Job 40069891 has completed.

All jobs have completed.
receiving incremental file list
msa/prot/
msa/prot/done.txt

0 0% 0.00kB/s 0:00:00
29 100% 28.32kB/s 0:00:00 (xfr#1, to-chk=6/12)
msa/prot/results.zip

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5.54M 100% 19.80MB/s 0:00:00 (xfr#2, to-chk=4/12)
msa/prot/slurm-40069891.out

0 0% 0.00kB/s 0:00:00
81.85K 100% 280.48kB/s 0:00:00 (xfr#3, to-chk=3/12)
msa/prot/8250A0650B614B99/
msa/prot/8250A0650B614B99/mmseqs_other_hits.a3m

0 0% 0.00kB/s 0:00:00
16.35M 100% 27.21MB/s 0:00:00 (xfr#4, to-chk=1/12)
msa/prot/8250A0650B614B99/uniref100_hits.a3m

0 0% 0.00kB/s 0:00:00
4.35M 100% 6.55MB/s 0:00:00 (xfr#5, to-chk=0/12)
adding: 817776499505e9050a736da45145cdd3/ (in=0) (out=0) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/ (in=0) (out=0) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/input.json (in=3111) (out=1823) (deflated 41%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/ (in=0) (out=0) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/ (in=0) (out=0) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/8250A0650B614B99/ (in=0) (out=0) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/8250A0650B614B99/mmseqs_other_hits.a3m . (in=16347713) (out=978997) (deflated 94%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/8250A0650B614B99/uniref100_hits.a3m (in=4346942) (out=829942) (deflated 81%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/prot.fasta (in=2535) (out=1485) (deflated 41%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/slurm-40069891.out (in=81854) (out=8298) (deflated 90%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/done.txt (in=29) (out=29) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/results.zip (in=5542855) (out=5542855) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/input.map ................ (in=174457856) (out=164666030) (deflated 6%)
total bytes=200782895, compressed=172029459 -> 14% savings
sending incremental file list
./
input.json

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input.map

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2.52M 1% 2.23MB/s 0:01:15
63.14M 36% 28.94MB/s 0:00:03
117.44M 67% 36.35MB/s 0:00:01
169.80M 97% 39.68MB/s 0:00:00
174.46M 100% 39.89MB/s 0:00:04 (xfr#2, to-chk=9/12)
msa/
msa/prot/
msa/prot/done.txt

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29 100% 0.30kB/s 0:00:00 (xfr#3, to-chk=6/12)
msa/prot/prot.fasta

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2.54K 100% 25.26kB/s 0:00:00 (xfr#4, to-chk=5/12)
msa/prot/results.zip

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2.29M 41% 766.34kB/s 0:00:04
2.52M 45% 450.29kB/s 0:00:06
5.54M 100% 982.92kB/s 0:00:05 (xfr#5, to-chk=4/12)
msa/prot/slurm-40069891.out

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81.85K 100% 1.90MB/s 0:00:00 (xfr#6, to-chk=3/12)
msa/prot/8250A0650B614B99/
msa/prot/8250A0650B614B99/mmseqs_other_hits.a3m

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2.52M 15% 1.58MB/s 0:00:08
16.35M 100% 9.21MB/s 0:00:01 (xfr#7, to-chk=1/12)
msa/prot/8250A0650B614B99/uniref100_hits.a3m

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2.52M 58% 1.36MB/s 0:00:01
4.35M 100% 2.32MB/s 0:00:01 (xfr#8, to-chk=0/12)
==> Regular mode: job 11171236
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==> Job 11171236 left the queue.
receiving incremental file list
./
CryoZeta_model_1.cif

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1.85M 100% 12.22MB/s 0:00:00 (xfr#1, to-chk=75/77)
CryoZeta_model_2.cif

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1.83M 100% 7.81MB/s 0:00:00 (xfr#2, to-chk=74/77)
CryoZeta_model_3.cif

0 0% 0.00kB/s 0:00:00
1.85M 100% 5.99MB/s 0:00:00 (xfr#3, to-chk=73/77)
CryoZeta_model_4.cif

0 0% 0.00kB/s 0:00:00
1.81M 100% 4.27MB/s 0:00:00 (xfr#4, to-chk=72/77)
CryoZeta_model_5.cif

0 0% 0.00kB/s 0:00:00
1.85M 100% 4.03MB/s 0:00:00 (xfr#5, to-chk=71/77)
done.txt

0 0% 0.00kB/s 0:00:00
32 100% 0.07kB/s 0:00:00 (xfr#6, to-chk=70/77)
slurm-11171236.out

0 0% 0.00kB/s 0:00:00
74.44K 100% 153.04kB/s 0:00:00 (xfr#7, to-chk=67/77)
output/
output/817776499505e9050a736da45145cdd3/
output/817776499505e9050a736da45145cdd3/CryoZeta-Detection/
output/817776499505e9050a736da45145cdd3/CryoZeta-Detection/817776499505e9050a736da45145cdd3.pt

0 0% 0.00kB/s 0:00:00
1.82M 100% 3.36MB/s 0:00:00 (xfr#8, to-chk=52/77)
output/817776499505e9050a736da45145cdd3/CryoZeta-Detection/817776499505e9050a736da45145cdd3_CA.pdb

0 0% 0.00kB/s 0:00:00
977.95K 100% 1.71MB/s 0:00:00 (xfr#9, to-chk=51/77)
output/817776499505e9050a736da45145cdd3/CryoZeta-Detection/817776499505e9050a736da45145cdd3_timing.txt

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207 100% 0.36kB/s 0:00:00 (xfr#10, to-chk=50/77)
output/817776499505e9050a736da45145cdd3/CryoZeta-Final/
output/817776499505e9050a736da45145cdd3/CryoZeta-Final/817776499505e9050a736da45145cdd3_sample_0.cif

0 0% 0.00kB/s 0:00:00
1.85M 100% 2.89MB/s 0:00:00 (xfr#11, to-chk=49/77)
output/817776499505e9050a736da45145cdd3/CryoZeta-Final/817776499505e9050a736da45145cdd3_sample_1.cif

0 0% 0.00kB/s 0:00:00
1.83M 100% 2.67MB/s 0:00:00 (xfr#12, to-chk=48/77)
output/817776499505e9050a736da45145cdd3/CryoZeta-Final/817776499505e9050a736da45145cdd3_sample_2.cif

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1.85M 100% 2.57MB/s 0:00:00 (xfr#13, to-chk=47/77)
output/817776499505e9050a736da45145cdd3/CryoZeta-Final/817776499505e9050a736da45145cdd3_sample_3.cif

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1.81M 100% 2.36MB/s 0:00:00 (xfr#14, to-chk=46/77)
output/817776499505e9050a736da45145cdd3/CryoZeta-Final/817776499505e9050a736da45145cdd3_sample_4.cif

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1.85M 100% 2.29MB/s 0:00:00 (xfr#15, to-chk=45/77)
output/817776499505e9050a736da45145cdd3/CryoZeta/
output/817776499505e9050a736da45145cdd3/CryoZeta/saved_data/
output/817776499505e9050a736da45145cdd3/CryoZeta/saved_data/output_dict_817776499505e9050a736da45145cdd3.pt

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102.03M 100% 52.80MB/s 0:00:01 (xfr#16, to-chk=42/77)
output/817776499505e9050a736da45145cdd3/CryoZeta/saved_data/scores.csv

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output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/
output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/
output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/817776499505e9050a736da45145cdd3_sample_0.cif

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output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/817776499505e9050a736da45145cdd3_sample_1.cif

0 0% 0.00kB/s 0:00:00
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output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/817776499505e9050a736da45145cdd3_sample_2.cif

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2.05M 100% 2.01MB/s 0:00:00 (xfr#20, to-chk=35/77)
output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/817776499505e9050a736da45145cdd3_sample_3.cif

0 0% 0.00kB/s 0:00:00
262.14K 12% 256.00kB/s 0:00:06
2.03M 100% 1.90MB/s 0:00:01 (xfr#21, to-chk=34/77)
output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/817776499505e9050a736da45145cdd3_sample_4.cif

0 0% 0.00kB/s 0:00:00
2.03M 100% 38.63MB/s 0:00:00 (xfr#22, to-chk=33/77)
output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/817776499505e9050a736da45145cdd3_summary_confidence_sample_0.json

0 0% 0.00kB/s 0:00:00
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output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/817776499505e9050a736da45145cdd3_summary_confidence_sample_1.json

0 0% 0.00kB/s 0:00:00
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output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/817776499505e9050a736da45145cdd3_summary_confidence_sample_2.json

0 0% 0.00kB/s 0:00:00
563 100% 4.74kB/s 0:00:00 (xfr#25, to-chk=30/77)
output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/817776499505e9050a736da45145cdd3_summary_confidence_sample_3.json

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563 100% 4.13kB/s 0:00:00 (xfr#26, to-chk=29/77)
output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/817776499505e9050a736da45145cdd3_summary_confidence_sample_4.json

0 0% 0.00kB/s 0:00:00
558 100% 3.56kB/s 0:00:00 (xfr#27, to-chk=28/77)
output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/atom_arrays/
output/817776499505e9050a736da45145cdd3/CryoZeta/seed_101/predictions/atom_arrays/817776499505e9050a736da45145cdd3_sample_0.npz

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adding: 817776499505e9050a736da45145cdd3/scratch/output/817776499505e9050a736da45145cdd3/CryoZeta-Detection/817776499505e9050a736da45145cdd3_CA.pdb (in=977947) (out=210210) (deflated 79%)
adding: 817776499505e9050a736da45145cdd3/scratch/output/817776499505e9050a736da45145cdd3/CryoZeta-Detection/817776499505e9050a736da45145cdd3.pt (in=1822658) (out=1383061) (deflated 24%)
adding: 817776499505e9050a736da45145cdd3/scratch/output/817776499505e9050a736da45145cdd3/CryoZeta-Final/ (in=0) (out=0) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/output/817776499505e9050a736da45145cdd3/CryoZeta-Final/817776499505e9050a736da45145cdd3_sample_1.cif (in=1825565) (out=488519) (deflated 73%)
adding: 817776499505e9050a736da45145cdd3/scratch/output/817776499505e9050a736da45145cdd3/CryoZeta-Final/817776499505e9050a736da45145cdd3_sample_3.cif (in=1805606) (out=486678) (deflated 73%)
adding: 817776499505e9050a736da45145cdd3/scratch/output/817776499505e9050a736da45145cdd3/CryoZeta-Final/817776499505e9050a736da45145cdd3_sample_0.cif (in=1845524) (out=491254) (deflated 73%)
adding: 817776499505e9050a736da45145cdd3/scratch/output/817776499505e9050a736da45145cdd3/CryoZeta-Final/817776499505e9050a736da45145cdd3_sample_4.cif (in=1845524) (out=491110) (deflated 73%)
adding: 817776499505e9050a736da45145cdd3/scratch/output/817776499505e9050a736da45145cdd3/CryoZeta-Final/817776499505e9050a736da45145cdd3_sample_2.cif (in=1845524) (out=490878) (deflated 73%)
adding: 817776499505e9050a736da45145cdd3/scratch/CryoZeta_model_4.cif (in=1805606) (out=486678) (deflated 73%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/ (in=0) (out=0) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/ (in=0) (out=0) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/8250A0650B614B99/ (in=0) (out=0) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/8250A0650B614B99/mmseqs_other_hits.a3m . (in=16347713) (out=978997) (deflated 94%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/8250A0650B614B99/uniref100_hits.a3m (in=4346942) (out=829942) (deflated 81%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/results.zip (in=5542855) (out=5542855) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/slurm-40069891.out (in=81854) (out=8298) (deflated 90%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/prot.fasta (in=2535) (out=1485) (deflated 41%)
adding: 817776499505e9050a736da45145cdd3/scratch/msa/prot/done.txt (in=29) (out=29) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/CryoZeta_model_1.cif (in=1845524) (out=491254) (deflated 73%)
adding: 817776499505e9050a736da45145cdd3/scratch/done.txt (in=32) (out=32) (stored 0%)
adding: 817776499505e9050a736da45145cdd3/scratch/slurm-11171236.out (in=74437) (out=9663) (deflated 87%)
total bytes=356118092, compressed=251592863 -> 29% savings
Processing: /net/kihara/scratch/webdklab/em-server/817776499505e9050a736da45145cdd3/CryoZeta_model_1.cif as Model 1
Processing: /net/kihara/scratch/webdklab/em-server/817776499505e9050a736da45145cdd3/CryoZeta_model_2.cif as Model 2
Processing: /net/kihara/scratch/webdklab/em-server/817776499505e9050a736da45145cdd3/CryoZeta_model_3.cif as Model 3
Processing: /net/kihara/scratch/webdklab/em-server/817776499505e9050a736da45145cdd3/CryoZeta_model_4.cif as Model 4
Processing: /net/kihara/scratch/webdklab/em-server/817776499505e9050a736da45145cdd3/CryoZeta_model_5.cif as Model 5
<gemmi.cif.Block CryoZeta_prediction_817776499505e9050a736da45145cdd3>
Creating output directory: /net/kihara/scratch/webdklab/em-server/817776499505e9050a736da45145cdd3/
Joined file: /net/kihara/scratch/webdklab/em-server/817776499505e9050a736da45145cdd3/CryoZeta_model_all.cif