Comments (5)
milot-mirdita
commented on August 18, 2024
2
I figured out what's going wrong here. We don't create the correct symlink for the taxonomic support files with precomputed index.
You should create these two symlinks (and also the same two for the colabfolddb).
ln -s uniref30_2202_db_mapping uniref30_2202_db.idx_mapping
ln -s uniref30_2202_db_taxonomy uniref30_2202_db.idx_taxonomy
from mmseqs2-app.
milot-mirdita
commented on August 18, 2024
Can you try with a newer commit? This look about right.
Can you please post a ls -lah of the databases folder?
from mmseqs2-app.
wosmanitx
commented on August 18, 2024
Hi, I am having the same problem:
[root@ip-172-31-50-187 databases]# ls -lah
total 1.6T
drwxr-xr-x 7 root root 48K Oct 31 15:27 .
drwxr-xr-x 6 root root 227 Oct 28 17:36 ..
-rw-r--r-- 1 root root 0 Oct 27 05:55 COLABDB_READY
-rw-r--r-- 1 ec2-user ec2-user 52G Sep 10 2021 colabfold_envdb_202108_aln.tsv
-rw-r--r-- 1 root root 196M Oct 27 05:15 colabfold_envdb_202108_db.0
-rw-r--r-- 1 root root 206M Oct 27 05:15 colabfold_envdb_202108_db.1
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.10
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.100
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.101
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.102
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.103
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.104
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.105
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.106
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.107
-rw-r--r-- 1 root root 196M Oct 27 05:15 colabfold_envdb_202108_db.108
-rw-r--r-- 1 root root 196M Oct 27 05:15 colabfold_envdb_202108_db.109
-rw-r--r-- 1 root root 196M Oct 27 05:15 colabfold_envdb_202108_db.11
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.110
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.111
-rw-r--r-- 1 root root 196M Oct 27 05:15 colabfold_envdb_202108_db.112
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.113
-rw-r--r-- 1 root root 196M Oct 27 05:15 colabfold_envdb_202108_db.114
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.115
-rw-r--r-- 1 root root 201M Oct 27 05:15 colabfold_envdb_202108_db.116
-rw-r--r-- 1 root root 202M Oct 27 05:15 colabfold_envdb_202108_db.117
-rw-r--r-- 1 root root 202M Oct 27 05:15 colabfold_envdb_202108_db.118
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.119
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.12
-rw-r--r-- 1 root root 205M Oct 27 05:15 colabfold_envdb_202108_db.120
-rw-r--r-- 1 root root 196M Oct 27 05:15 colabfold_envdb_202108_db.121
-rw-r--r-- 1 root root 195M Oct 27 05:15 colabfold_envdb_202108_db.122
-rw-r--r-- 1 root root 195M Oct 27 05:15 colabfold_envdb_202108_db.123
-rw-r--r-- 1 root root 195M Oct 27 05:15 colabfold_envdb_202108_db.124
-rw-r--r-- 1 root root 195M Oct 27 05:15 colabfold_envdb_202108_db.125
-rw-r--r-- 1 root root 194M Oct 27 05:15 colabfold_envdb_202108_db.126
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.127
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.13
-rw-r--r-- 1 root root 204M Oct 27 05:15 colabfold_envdb_202108_db.14
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.15
-rw-r--r-- 1 root root 204M Oct 27 05:15 colabfold_envdb_202108_db.16
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.17
-rw-r--r-- 1 root root 204M Oct 27 05:15 colabfold_envdb_202108_db.18
-rw-r--r-- 1 root root 204M Oct 27 05:15 colabfold_envdb_202108_db.19
-rw-r--r-- 1 root root 204M Oct 27 05:15 colabfold_envdb_202108_db.2
-rw-r--r-- 1 root root 202M Oct 27 05:15 colabfold_envdb_202108_db.20
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.21
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.22
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.23
-rw-r--r-- 1 root root 201M Oct 27 05:15 colabfold_envdb_202108_db.24
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.25
-rw-r--r-- 1 root root 196M Oct 27 05:15 colabfold_envdb_202108_db.26
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.27
-rw-r--r-- 1 root root 202M Oct 27 05:15 colabfold_envdb_202108_db.28
-rw-r--r-- 1 root root 194M Oct 27 05:15 colabfold_envdb_202108_db.29
-rw-r--r-- 1 root root 205M Oct 27 05:15 colabfold_envdb_202108_db.3
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.30
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.31
-rw-r--r-- 1 root root 202M Oct 27 05:15 colabfold_envdb_202108_db.32
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.33
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.34
-rw-r--r-- 1 root root 202M Oct 27 05:15 colabfold_envdb_202108_db.35
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.36
-rw-r--r-- 1 root root 201M Oct 27 05:15 colabfold_envdb_202108_db.37
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.38
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.39
-rw-r--r-- 1 root root 205M Oct 27 05:15 colabfold_envdb_202108_db.4
-rw-r--r-- 1 root root 204M Oct 27 05:15 colabfold_envdb_202108_db.40
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.41
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.42
-rw-r--r-- 1 root root 204M Oct 27 05:15 colabfold_envdb_202108_db.43
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.44
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.45
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.46
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.47
-rw-r--r-- 1 root root 203M Oct 27 05:15 colabfold_envdb_202108_db.48
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.49
-rw-r--r-- 1 root root 205M Oct 27 05:15 colabfold_envdb_202108_db.5
-rw-r--r-- 1 root root 201M Oct 27 05:15 colabfold_envdb_202108_db.50
-rw-r--r-- 1 root root 201M Oct 27 05:15 colabfold_envdb_202108_db.51
-rw-r--r-- 1 root root 202M Oct 27 05:15 colabfold_envdb_202108_db.52
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.53
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.54
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.55
-rw-r--r-- 1 root root 202M Oct 27 05:15 colabfold_envdb_202108_db.56
-rw-r--r-- 1 root root 196M Oct 27 05:15 colabfold_envdb_202108_db.57
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.58
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.59
-rw-r--r-- 1 root root 205M Oct 27 05:15 colabfold_envdb_202108_db.6
-rw-r--r-- 1 root root 201M Oct 27 05:15 colabfold_envdb_202108_db.60
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.61
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.62
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.63
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.64
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.65
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.66
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.67
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.68
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.69
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.7
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.70
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.71
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.72
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.73
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.74
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.75
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.76
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.77
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.78
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.79
-rw-r--r-- 1 root root 201M Oct 27 05:15 colabfold_envdb_202108_db.8
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.80
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.81
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.82
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.83
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.84
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.85
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.86
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.87
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.88
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.89
-rw-r--r-- 1 root root 194M Oct 27 05:15 colabfold_envdb_202108_db.9
-rw-r--r-- 1 root root 199M Oct 27 05:15 colabfold_envdb_202108_db.90
-rw-r--r-- 1 root root 200M Oct 27 05:15 colabfold_envdb_202108_db.91
-rw-r--r-- 1 root root 205M Oct 27 05:15 colabfold_envdb_202108_db.92
-rw-r--r-- 1 root root 206M Oct 27 05:15 colabfold_envdb_202108_db.93
-rw-r--r-- 1 root root 205M Oct 27 05:15 colabfold_envdb_202108_db.94
-rw-r--r-- 1 root root 206M Oct 27 05:15 colabfold_envdb_202108_db.95
-rw-r--r-- 1 root root 198M Oct 27 05:15 colabfold_envdb_202108_db.96
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.97
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.98
-rw-r--r-- 1 root root 197M Oct 27 05:15 colabfold_envdb_202108_db.99
-rw-r--r-- 1 root root 203M Oct 27 05:30 colabfold_envdb_202108_db_aln.0
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.1
-rw-r--r-- 1 root root 196M Oct 27 05:30 colabfold_envdb_202108_db_aln.10
-rw-r--r-- 1 root root 208M Oct 27 05:30 colabfold_envdb_202108_db_aln.100
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.101
-rw-r--r-- 1 root root 208M Oct 27 05:30 colabfold_envdb_202108_db_aln.102
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.103
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.104
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-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.107
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.108
-rw-r--r-- 1 root root 206M Oct 27 05:30 colabfold_envdb_202108_db_aln.109
-rw-r--r-- 1 root root 183M Oct 27 05:30 colabfold_envdb_202108_db_aln.11
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.110
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.111
-rw-r--r-- 1 root root 207M Oct 27 05:30 colabfold_envdb_202108_db_aln.112
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.113
-rw-r--r-- 1 root root 207M Oct 27 05:30 colabfold_envdb_202108_db_aln.114
-rw-r--r-- 1 root root 208M Oct 27 05:30 colabfold_envdb_202108_db_aln.115
-rw-r--r-- 1 root root 224M Oct 27 05:30 colabfold_envdb_202108_db_aln.116
-rw-r--r-- 1 root root 228M Oct 27 05:30 colabfold_envdb_202108_db_aln.117
-rw-r--r-- 1 root root 230M Oct 27 05:30 colabfold_envdb_202108_db_aln.118
-rw-r--r-- 1 root root 217M Oct 27 05:30 colabfold_envdb_202108_db_aln.119
-rw-r--r-- 1 root root 206M Oct 27 05:30 colabfold_envdb_202108_db_aln.12
-rw-r--r-- 1 root root 241M Oct 27 05:30 colabfold_envdb_202108_db_aln.120
-rw-r--r-- 1 root root 210M Oct 27 05:30 colabfold_envdb_202108_db_aln.121
-rw-r--r-- 1 root root 208M Oct 27 05:30 colabfold_envdb_202108_db_aln.122
-rw-r--r-- 1 root root 207M Oct 27 05:30 colabfold_envdb_202108_db_aln.123
-rw-r--r-- 1 root root 206M Oct 27 05:30 colabfold_envdb_202108_db_aln.124
-rw-r--r-- 1 root root 208M Oct 27 05:30 colabfold_envdb_202108_db_aln.125
-rw-r--r-- 1 root root 205M Oct 27 05:30 colabfold_envdb_202108_db_aln.126
-rw-r--r-- 1 root root 207M Oct 27 05:30 colabfold_envdb_202108_db_aln.127
-rw-r--r-- 1 root root 205M Oct 27 05:30 colabfold_envdb_202108_db_aln.13
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.14
-rw-r--r-- 1 root root 208M Oct 27 05:30 colabfold_envdb_202108_db_aln.15
-rw-r--r-- 1 root root 207M Oct 27 05:30 colabfold_envdb_202108_db_aln.16
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.17
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-rw-r--r-- 1 root root 211M Oct 27 05:30 colabfold_envdb_202108_db_aln.19
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.2
-rw-r--r-- 1 root root 207M Oct 27 05:30 colabfold_envdb_202108_db_aln.20
-rw-r--r-- 1 root root 210M Oct 27 05:30 colabfold_envdb_202108_db_aln.21
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.22
-rw-r--r-- 1 root root 210M Oct 27 05:30 colabfold_envdb_202108_db_aln.23
-rw-r--r-- 1 root root 202M Oct 27 05:30 colabfold_envdb_202108_db_aln.24
-rw-r--r-- 1 root root 210M Oct 27 05:30 colabfold_envdb_202108_db_aln.25
-rw-r--r-- 1 root root 187M Oct 27 05:30 colabfold_envdb_202108_db_aln.26
-rw-r--r-- 1 root root 213M Oct 27 05:30 colabfold_envdb_202108_db_aln.27
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.28
-rw-r--r-- 1 root root 184M Oct 27 05:30 colabfold_envdb_202108_db_aln.29
-rw-r--r-- 1 root root 210M Oct 27 05:30 colabfold_envdb_202108_db_aln.3
-rw-r--r-- 1 root root 199M Oct 27 05:30 colabfold_envdb_202108_db_aln.30
-rw-r--r-- 1 root root 211M Oct 27 05:30 colabfold_envdb_202108_db_aln.31
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.32
-rw-r--r-- 1 root root 199M Oct 27 05:30 colabfold_envdb_202108_db_aln.33
-rw-r--r-- 1 root root 213M Oct 27 05:30 colabfold_envdb_202108_db_aln.34
-rw-r--r-- 1 root root 211M Oct 27 05:30 colabfold_envdb_202108_db_aln.35
-rw-r--r-- 1 root root 195M Oct 27 05:30 colabfold_envdb_202108_db_aln.36
-rw-r--r-- 1 root root 210M Oct 27 05:30 colabfold_envdb_202108_db_aln.37
-rw-r--r-- 1 root root 195M Oct 27 05:30 colabfold_envdb_202108_db_aln.38
-rw-r--r-- 1 root root 216M Oct 27 05:30 colabfold_envdb_202108_db_aln.39
-rw-r--r-- 1 root root 208M Oct 27 05:30 colabfold_envdb_202108_db_aln.4
-rw-r--r-- 1 root root 219M Oct 27 05:30 colabfold_envdb_202108_db_aln.40
-rw-r--r-- 1 root root 194M Oct 27 05:30 colabfold_envdb_202108_db_aln.41
-rw-r--r-- 1 root root 216M Oct 27 05:30 colabfold_envdb_202108_db_aln.42
-rw-r--r-- 1 root root 220M Oct 27 05:30 colabfold_envdb_202108_db_aln.43
-rw-r--r-- 1 root root 207M Oct 27 05:30 colabfold_envdb_202108_db_aln.44
-rw-r--r-- 1 root root 202M Oct 27 05:30 colabfold_envdb_202108_db_aln.45
-rw-r--r-- 1 root root 197M Oct 27 05:30 colabfold_envdb_202108_db_aln.46
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-rw-r--r-- 1 root root 213M Oct 27 05:30 colabfold_envdb_202108_db_aln.48
-rw-r--r-- 1 root root 206M Oct 27 05:30 colabfold_envdb_202108_db_aln.49
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-rw-r--r-- 1 root root 199M Oct 27 05:30 colabfold_envdb_202108_db_aln.54
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-rw-r--r-- 1 root root 210M Oct 27 05:30 colabfold_envdb_202108_db_aln.68
-rw-r--r-- 1 root root 209M Oct 27 05:30 colabfold_envdb_202108_db_aln.69
-rw-r--r-- 1 root root 185M Oct 27 05:30 colabfold_envdb_202108_db_aln.7
-rw-r--r-- 1 root root 210M Oct 27 05:30 colabfold_envdb_202108_db_aln.70
-rw-r--r-- 1 root root 210M Oct 27 05:30 colabfold_envdb_202108_db_aln.71
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lrwxrwxrwx 1 root root 27 Oct 27 05:31 colabfold_envdb_202108_db_seq_h -> colabfold_envdb_202108_db_h
lrwxrwxrwx 1 root root 34 Oct 27 05:31 colabfold_envdb_202108_db_seq_h.dbtype -> colabfold_envdb_202108_db_h.dbtype
lrwxrwxrwx 1 root root 33 Oct 27 05:31 colabfold_envdb_202108_db_seq_h.index -> colabfold_envdb_202108_db_h.index
-rw-r--r-- 1 root root 18G Oct 27 05:27 colabfold_envdb_202108_db_seq.index
-rw-r--r-- 1 ec2-user ec2-user 30G Sep 13 2021 colabfold_envdb_202108_h.tsv
-rw-r--r-- 1 ec2-user ec2-user 128G Sep 13 2021 colabfold_envdb_202108_seq.tsv
-rw-r--r-- 1 root root 110G Oct 27 04:36 colabfold_envdb_202108.tar.gz
-rw-r--r-- 1 ec2-user ec2-user 38G Sep 10 2021 colabfold_envdb_202108.tsv
-rw-rw-r-- 1 ec2-user ec2-user 119 Apr 1 2022 md5sum
drwxr-xr-x 4 root root 37 Oct 27 06:15 pdb
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-rw-r--r-- 1 root root 24 Oct 27 05:55 pdb70_220313.source
-rw------- 1 513478 9100 74G Mar 18 2022 pdb70_a3m.ffdata
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-rw-r--r-- 1 root root 27G Oct 27 06:06 pdb70_from_mmcif_220313.tar.gz
-rw-r--r-- 1 root root 0 Oct 27 06:15 PDB70_READY
-rw-r--r-- 1 root root 0 Oct 27 06:48 PDB_MMCIF_READY
-rw-r--r-- 1 root root 0 Oct 27 05:55 PDB_READY
drwxr-xr-x 3 root root 47 Oct 31 14:57 tmp
drwxr-xr-x 3 root root 48 Oct 27 03:15 tmp1
drwxr-xr-x 3 root root 48 Oct 27 05:31 tmp2
drwxr-xr-x 3 root root 48 Oct 27 05:55 tmp3
-rw-r--r-- 1 root root 1.3G Apr 1 2022 uniref30_2103_taxonomy.tar.gz
-rw------- 1 528745 9100 26G Jun 1 13:32 uniref30_2202_aln.tsv
-rw-r--r-- 1 root root 82M Oct 27 03:07 uniref30_2202_db.0
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-rw-r--r-- 1 root root 132M Oct 27 03:14 uniref30_2202_db_aln.0
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-rw-r--r-- 1 root root 117M Oct 27 03:14 uniref30_2202_db_aln.103
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-rw-r--r-- 1 root root 75M Oct 27 03:14 uniref30_2202_db_aln.108
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-rw-r--r-- 1 root root 96M Oct 27 03:14 uniref30_2202_db_aln.111
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-rw-r--r-- 1 root root 76M Oct 27 03:14 uniref30_2202_db_aln.24
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-rw-r--r-- 1 root root 69M Oct 27 03:14 uniref30_2202_db_aln.28
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-rw-r--r-- 1 root root 119M Oct 27 03:14 uniref30_2202_db_aln.35
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-rw-r--r-- 1 root root 127M Oct 27 03:14 uniref30_2202_db_aln.39
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-rw-r--r-- 1 root root 112M Oct 27 03:14 uniref30_2202_db_aln.51
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-rw-r--r-- 1 root root 107M Oct 27 03:14 uniref30_2202_db_aln.55
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-rw-r--r-- 1 root root 112M Oct 27 03:14 uniref30_2202_db_aln.59
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-rw-r--r-- 1 root root 105M Oct 27 03:14 uniref30_2202_db_aln.63
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-rw-r--r-- 1 root root 104M Oct 27 03:14 uniref30_2202_db_aln.67
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-rw-r--r-- 1 root root 25M Oct 27 03:14 uniref30_2202_db_aln.69
-rw-r--r-- 1 root root 51M Oct 27 03:14 uniref30_2202_db_aln.7
-rw-r--r-- 1 root root 52M Oct 27 03:14 uniref30_2202_db_aln.70
-rw-r--r-- 1 root root 109M Oct 27 03:14 uniref30_2202_db_aln.71
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-rw-r--r-- 1 root root 102M Oct 27 03:14 uniref30_2202_db_aln.75
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-rw-r--r-- 1 root root 24M Oct 27 03:14 uniref30_2202_db_aln.77
-rw-r--r-- 1 root root 50M Oct 27 03:14 uniref30_2202_db_aln.78
-rw-r--r-- 1 root root 110M Oct 27 03:14 uniref30_2202_db_aln.79
-rw-r--r-- 1 root root 110M Oct 27 03:14 uniref30_2202_db_aln.8
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-rw-r--r-- 1 root root 105M Oct 27 03:14 uniref30_2202_db_aln.83
-rw-r--r-- 1 root root 47M Oct 27 03:14 uniref30_2202_db_aln.84
-rw-r--r-- 1 root root 27M Oct 27 03:14 uniref30_2202_db_aln.85
-rw-r--r-- 1 root root 42M Oct 27 03:14 uniref30_2202_db_aln.86
-rw-r--r-- 1 root root 113M Oct 27 03:14 uniref30_2202_db_aln.87
-rw-r--r-- 1 root root 49M Oct 27 03:14 uniref30_2202_db_aln.88
-rw-r--r-- 1 root root 26M Oct 27 03:14 uniref30_2202_db_aln.89
-rw-r--r-- 1 root root 44M Oct 27 03:14 uniref30_2202_db_aln.9
-rw-r--r-- 1 root root 36M Oct 27 03:14 uniref30_2202_db_aln.90
-rw-r--r-- 1 root root 118M Oct 27 03:14 uniref30_2202_db_aln.91
-rw-r--r-- 1 root root 51M Oct 27 03:14 uniref30_2202_db_aln.92
-rw-r--r-- 1 root root 27M Oct 27 03:14 uniref30_2202_db_aln.93
-rw-r--r-- 1 root root 28M Oct 27 03:14 uniref30_2202_db_aln.94
-rw-r--r-- 1 root root 123M Oct 27 03:14 uniref30_2202_db_aln.95
-rw-r--r-- 1 root root 56M Oct 27 03:14 uniref30_2202_db_aln.96
-rw-r--r-- 1 root root 29M Oct 27 03:14 uniref30_2202_db_aln.97
-rw-r--r-- 1 root root 19M Oct 27 03:14 uniref30_2202_db_aln.98
-rw-r--r-- 1 root root 125M Oct 27 03:14 uniref30_2202_db_aln.99
-rw-r--r-- 1 root root 4 Oct 27 03:14 uniref30_2202_db_aln.dbtype
-rw-r--r-- 1 root root 730M Oct 27 03:14 uniref30_2202_db_aln.index
-rw-r--r-- 1 root root 4 Oct 27 03:07 uniref30_2202_db.dbtype
-rw-r--r-- 1 root root 3.7G Oct 27 03:06 uniref30_2202_db_h
-rw-r--r-- 1 root root 4 Oct 27 03:07 uniref30_2202_db_h.dbtype
-rw-r--r-- 1 root root 6.7G Oct 27 03:07 uniref30_2202_db_h.index
-rw-r--r-- 1 root root 157G Oct 31 15:27 uniref30_2202_db.idx
-rw-r--r-- 1 root root 4 Oct 31 15:27 uniref30_2202_db.idx.dbtype
-rw-r--r-- 1 root root 512 Oct 31 15:27 uniref30_2202_db.idx.index
-rw-r--r-- 1 root root 740M Oct 27 03:07 uniref30_2202_db.index
-rw-r--r-- 1 ec2-user ec2-user 2.1G Apr 1 2022 uniref30_2202_db_mapping
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.0
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.1
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.10
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.100
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.101
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.102
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.103
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.104
-rw-r--r-- 1 root root 541M Oct 27 03:12 uniref30_2202_db_seq.105
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.106
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.107
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.108
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.109
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.11
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.110
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.111
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.112
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.113
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.114
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.115
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.116
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.117
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.118
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.119
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.12
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.120
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.121
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.122
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.123
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.124
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.125
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.126
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.127
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.13
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.14
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.15
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.16
-rw-r--r-- 1 root root 541M Oct 27 03:12 uniref30_2202_db_seq.17
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.18
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.19
-rw-r--r-- 1 root root 375M Oct 27 03:12 uniref30_2202_db_seq.2
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.20
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.21
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.22
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.23
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.24
-rw-r--r-- 1 root root 541M Oct 27 03:12 uniref30_2202_db_seq.25
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.26
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.27
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.28
-rw-r--r-- 1 root root 541M Oct 27 03:12 uniref30_2202_db_seq.29
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.3
-rw-r--r-- 1 root root 375M Oct 27 03:12 uniref30_2202_db_seq.30
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.31
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.32
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.33
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.34
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.35
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.36
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.37
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.38
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.39
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.4
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.40
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.41
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.42
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.43
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.44
-rw-r--r-- 1 root root 541M Oct 27 03:12 uniref30_2202_db_seq.45
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.46
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.47
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.48
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.49
-rw-r--r-- 1 root root 541M Oct 27 03:12 uniref30_2202_db_seq.5
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.50
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.51
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.52
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.53
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.54
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.55
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.56
-rw-r--r-- 1 root root 541M Oct 27 03:12 uniref30_2202_db_seq.57
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.58
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.59
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.6
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.60
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.61
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.62
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.63
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.64
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.65
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.66
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.67
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.68
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.69
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.7
-rw-r--r-- 1 root root 375M Oct 27 03:12 uniref30_2202_db_seq.70
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.71
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.72
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.73
-rw-r--r-- 1 root root 375M Oct 27 03:12 uniref30_2202_db_seq.74
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.75
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.76
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.77
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.78
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.79
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.8
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.80
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.81
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.82
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.83
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.84
-rw-r--r-- 1 root root 541M Oct 27 03:12 uniref30_2202_db_seq.85
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.86
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.87
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.88
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.89
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.9
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.90
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.91
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.92
-rw-r--r-- 1 root root 541M Oct 27 03:12 uniref30_2202_db_seq.93
-rw-r--r-- 1 root root 375M Oct 27 03:12 uniref30_2202_db_seq.94
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.95
-rw-r--r-- 1 root root 1.1G Oct 27 03:12 uniref30_2202_db_seq.96
-rw-r--r-- 1 root root 542M Oct 27 03:12 uniref30_2202_db_seq.97
-rw-r--r-- 1 root root 376M Oct 27 03:12 uniref30_2202_db_seq.98
-rw-r--r-- 1 root root 222M Oct 27 03:12 uniref30_2202_db_seq.99
-rw-r--r-- 1 root root 4 Oct 27 03:13 uniref30_2202_db_seq.dbtype
lrwxrwxrwx 1 root root 18 Oct 27 03:14 uniref30_2202_db_seq_h -> uniref30_2202_db_h
lrwxrwxrwx 1 root root 25 Oct 27 03:14 uniref30_2202_db_seq_h.dbtype -> uniref30_2202_db_h.dbtype
lrwxrwxrwx 1 root root 24 Oct 27 03:14 uniref30_2202_db_seq_h.index -> uniref30_2202_db_h.index
-rw-r--r-- 1 root root 7.3G Oct 27 03:13 uniref30_2202_db_seq.index
-rw-r--r-- 1 ec2-user ec2-user 620M Apr 1 2022 uniref30_2202_db_taxonomy
-rw------- 1 528745 9100 6.2G Jun 1 12:06 uniref30_2202_h.tsv
-rw------- 1 528745 9100 4.8G Jun 1 22:39 uniref30_2202_mapping.tsv
-rw------- 1 528745 9100 397 Jul 17 03:22 uniref30_2202.md5sum
-rw------- 1 528745 9100 112G Jun 1 13:28 uniref30_2202_seq.tsv
-rw-r--r-- 1 root root 78G Oct 27 01:27 uniref30_2202.tar.gz
-rw------- 1 528745 9100 7.5G Jun 1 13:29 uniref30_2202.tsv
-rw-r--r-- 1 root root 0 Oct 27 03:18 UNIREF30_READY
from mmseqs2-app.
xieqihui
commented on August 18, 2024
Have you found out any solution to this? I'm encoutering exactly the same issue. I'm using the latest release of mmseqs - MMseqs2 Release 14-7e284. I tried both uniref30_2202 and uniref30_2103, all have the same issue.
Attached is the output of ls -lha <databases>
from mmseqs2-app.
xieqihui
commented on August 18, 2024
I figured out what's going wrong here. We don't create the correct symlink for the taxonomic support files with precomputed index.
You should create these two symlinks (and also the same two for the colabfolddb).
ln -s uniref30_2202_db_mapping uniref30_2202_db.idx_mapping ln -s uniref30_2202_db_taxonomy uniref30_2202_db.idx_taxonomy
Great, this works. Thanks a lot!
from mmseqs2-app.
Related Issues (20)
- local colabfold_batch cannot communicate with local mmseq2 web api HOT 19
- Full target/query alignment being truncated in web UI HOT 3
- docker install error: ghcr.io pull error HOT 7
- mmseqs-server: errors when called from colabfold_batch HOT 2
- App does not work with latest mmseqs version HOT 2
- Pass --max-seqs through GUI or server API?
- Implement three diferent states for visualizing query structure in Structure Viewer
- Possible to add single or multiple sequences to existing database
- Temporary redirect issue HOT 6
- Foldseek all database view rework
- Running it in kubernetes HOT 4
- Historical jobs not loaded: "Job failed. Please try again later."
- jobs stuck in PENDING status with local mmseqs-web API HOT 2
- "docker-compose run db-setup PDB" not working HOT 2
- host not found in upstream "mmseqs-web-api HOT 7
- "405 Not Allowed" returned for the queries HOT 4
- Foldseek jobs are not persistent from GUI HOT 5
- Local Foldseek searches are no longer working HOT 6
- docker-compose run db-setup XXX fails due to no space left on device
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from mmseqs2-app.