Timeout while submitting to MSA server

[zhangjuan233]

Hello,

After executing the command colabfold_batch exper/fasta-res/G0_G0.fasta exper/pdbs --num-models 5, I encountered the following errors:

2024-05-06 15:47:16,903 Unable to initialize backend 'rocm': NOT_FOUND: Could not find registered platform with name: "rocm". Available platform names are: CUDA
2024-05-06 15:47:16,905 Unable to initialize backend 'tpu': INTERNAL: Failed to open libtpu.so: libtpu.so: cannot open shared object file: No such file or directory
2024-05-06 15:47:16,927 Running on GPU
2024-05-06 15:47:17,628 Found 5 citations for tools or databases
2024-05-06 15:47:17,628 Query 1/1: G0_G0 (length 1334)
2024-05-06 15:47:24,534 Timeout while submitting to MSA server. Retrying...
2024-05-06 15:47:30,564 Timeout while submitting to MSA server. Retrying...

**Our IP is 172.31.226.55. After trying the command curl https://api.colabfold.com/queue, I received the following error: curl: (35) OpenSSL SSL_connect: SSL_ERROR_SYSCALL in connection to api.colabfold.com:443.

Your Environment

colabfold 1.5.5

Looking forward to your reply. Thank you.

[milot-mirdita]

Could you run the following from the same machine and report what is says?

openssl s_client -connect api.colabfold.com:443

[zhangjuan233]

Could you run the following from the same machine and report what is says?

openssl s_client -connect api.colabfold.com:443

Following your instructions, I obtained the following information:

Connecting to 147.46.145.74 CONNECTED(00000003) 40252FA6B97F0000:error:0A000126:SSL routines::unexpected eof while reading:ssl/record/rec_layer_s3.c:687: no peer certificate available No client certificate CA names sent SSL handshake has read 0 bytes and written 332 bytes Verification: OK New, (NONE), Cipher is (NONE) This TLS version forbids renegotiation. Compression: NONE Expansion: NONE No ALPN negotiated Early data was not sent Verify return code: 0 (ok)

[milot-mirdita]

not sure I can help here, this looks like a network/ssl issue and anything specific to colabfold.

I would recommend to ask your university/institute IT for guidance.

[jodo231]

Hi,

I'm also running into a similar issue. When i try the "openssl s_client -connect api.colabfold.com:443" command i get the following output:

00DCCDA7112B0000:error:8000006E:system library:BIO_connect:Connection timed out:crypto/bio/bio_sock2.c:178:calling connect() 00DCCDA7112B0000:error:10000067:BIO routines:BIO_connect:connect error:crypto/bio/bio_sock2.c:180: connect:errno=110

any help is much appreciated.

[milot-mirdita]

Is this right now? I am doing some maintenance right now. The server will be back in a few minutes. However even now during the maintenance it should not time out and return at least some response

[jodo231]

Yes, it was a few minutes before the original post. I'll try again in around an hour

Thanks!