Re: [DIYbio] Re: [Biopython] Thermocycler program file format(ting)

I think a JSON representation makes more sense, personally; that way, it's easily consumed by any programme or translated easily back into a human representation. I may break out the aforementioned OpenPyCR functionality into a translator from plain->JSON.

Suggested format:

{ "headers": {
    "title": "My favourite program",
    "created": <unix-timestamp>
  },
  "program": [
    {"type": "step", "title": "Heat Lid", },
    {"type": "step", "title": "Hot start", "block_tm":95, "hold": <seconds>},
    {"type": "loop", "steps": [<program steps in same format>]},
  ]
}

On 13/05/15 15:33, Ben Sima wrote:

If these PCR programs are just Python code, then you could just save
them in .py files.

Do you have a small example of what you're trying to save?

-Ben


On Wednesday, May 13, 2015 at 8:10:37 AM UTC-4, Bryan Bishop wrote:


    From: Horea Christian <h....@mail.ru <javascript:>>
    Date: Wed, May 13, 2015 at 6:38 AM
    Subject: [Biopython] Thermocycler program file format(ting)
    To: biop...@mailman.open-bio.org <javascript:>


    __
    I would like to store my Thermocycler (pcr) programs on my server to
    better keep track of them. Do you know any good format/style to do
    that in? does biopythonhave any thermocycler program objects?

    Right now I was thinking of saving this in a normal .csv file, but
    the entire iterative aspect of PCR seems difficult for me to convey
    in a concise matter in a .csv file. Would you have any suggestions?


    Best Regards,
    Christian

    --
    *Horea Christian, M.Sc.*
    Doctoral Researcher
    Institute for Biomedical Engineering
    Neuroscience Center Zurich
    *ETH Zurich and UZH*

    Email, horea....@gmail.com <javascript:>
    Online portal, chymera.eu <http://chymera.eu>


    _______________________________________________
    Biopython mailing list  - Biop...@mailman.open-bio.org <javascript:>
    http://mailman.open-bio.org/mailman/listinfo/biopython
    <http://mailman.open-bio.org/mailman/listinfo/biopython>



    --
    - Bryan
    http://heybryan.org/
    1 512 203 0507

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