Changes between Version 2 and Version 3 of Ticket #7358, comment 3


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Timestamp:
Aug 1, 2022, 7:29:47 PM (3 years ago)
Author:
Tom Goddard

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  • Ticket #7358, comment 3

    v2 v3  
    1 I timed mmseqs2 searching the 139 residue sequence of 7n7g against the 1 million sequence AlphaFold database on various UCSF computers, my 2022 MacBook Pro (M1 Max CPU, 32 GB memory) mmseqs installed from homebrew, minsky Ubuntu 20 alphafold machine (64 GB memory, Intel Core i9-10850K CPU @ 3.60GHz with 10 cores) with fast NVMe drive, and crick (376 GB, plato CentOS7, 2 Intel Xeon Gold 6132 CPU @ 2.60GHz each with 14 cores) in home directory on beegfs file system.  For both linux systems I used the binary distribution of mmseqs2.  The AlphaFold sequences fasta file is 500 Mb.  I computed an mmseq index which is 3.9 Gbytes (*.idx file)o.  I ran multiple times so the index should be cached in memory.
     1I timed mmseqs2 searching the 139 residue sequence of 7n7g against the 1 million sequence AlphaFold database on various UCSF computers, my 2022 MacBook Pro (M1 Max CPU, 32 GB memory) mmseqs installed from homebrew arm64 executable, minsky Ubuntu 20 alphafold machine (64 GB memory, Intel Core i9-10850K CPU @ 3.60GHz with 10 cores) with fast NVMe drive, and crick (376 GB, plato CentOS7, 2 Intel Xeon Gold 6132 CPU @ 2.60GHz each with 14 cores) in home directory on beegfs file system.  For both linux systems I used the binary distribution of mmseqs2.  The AlphaFold sequences fasta file is 500 Mb.  I computed an mmseq index which is 3.9 Gbytes (*.idx file)o.  I ran multiple times so the index should be cached in memory.
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    33Mac 0.49 seconds