Re: [phenixbb] advice for speeding up cif_as_mtz

Hi Eric, I just tried this command: phenix.cif_as_mtz 3a0n-sf.cif --ignore-bad-sigmas --merge --remove-systematic-absences --map-to-asu --symmetry=3a0n.pdb and it tool approximately 5 seconds to run on my computer. Pavel On 9/18/12 4:53 PM, Eric Williams wrote:

It seems that the location of Phenix does matter (at least on my system). I ran cif_as_mtz (from 1.8.1-1155) on 3a0n, using only the "--merge" switch. Running from the CIFS mount, it took ~5 minutes. Running from the local file system, it took ~21 seconds. The CIF file was on the local file system in both experiments.

Weird.

Eric

On Mon, Sep 10, 2012 at 3:51 PM, Nathaniel Echols mailto:[email protected]> wrote:

On Mon, Sep 10, 2012 at 12:31 PM, Eric Williams mailto:[email protected]> wrote: > I'm running it on a CIFS-mounted disk. Phenix and the data are located on > the same disk, though.

It doesn't matter where Phenix is - the IO overhead from reading the CIF and writing the MTZ could be substantial though. Try running a few jobs with files on a local disk and see if that goes faster.

-Nat _______________________________________________ phenixbb mailing list [email protected] mailto:[email protected] http://phenix-online.org/mailman/listinfo/phenixbb

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