Hi Adrian, this looks like a good start. I'm creating a laboratory robot that executes instructions. I've been playing around with a few idea's on how to control my robot. I don't know If I want to use XML, JSON, or my own protocol. Right now I'm using my own protocol attached to the comment section of gCode to hold other commands that is processed by the gCode sender.
My current protocol works as follows:
DEVICE - ACTION - VERIFY - RECORD
On Oct 15, 2019, at 11:14 AM, AdrianMolecule <buzzwordy@gmail.com> wrote:Hi James,
Basically I wanted something that can be as granular that can be used for a simulator or an automated lab directly or could be used for a high level paper.
It's using the Ontology idea (describes the structure in an XML) where the operations (steps) can be added to a global repository edited with an open source editor called
so they can be extended yet standardized. By using a tree one can collapse lower level nodes into more high level protocol.I am considering uploading it on my bio club. URL is specyal.comHere is a test screenshot.Cheers,Adrian
<wetprotocol.png>
On Monday, October 14, 2019 at 1:56:01 PM UTC-4, S James Parsons Jr wrote:Adrian,Do you have a link for your bio code language?On Oct 14, 2019, at 1:25 PM, AdrianMolecule <buzz...@gmail.com> wrote:I looked at BioCoder and based on my needs I found it insufficient. I started to develop a new standard and interface and I worked on it for several good months until I got a working beta.I put it on hold as I was more involved with other research but I'm looking forward to complete it. If you are still interested, I would e happy to engage some form of collaboration.Cheers,Adrian
On Tuesday, December 8, 2009 at 7:26:51 AM UTC-5, Vaishnavi. A wrote:Hi all,
I am one of the developers of the BioCoder language. BioCoder is
essentially a C library with various functionalities included,
pertaining primarily to the field of Molecular Biology. We envision
the replacement of natural language description of protocols in
published papers with code written in BioCoder, thus making the
protocol standardized and amenable to automation and re-usability.We
are in the process of working out the release of BioCoder.
It is a widely accepted fact that most descriptions of protocols in
published papers are ambiguous and incomplete and we are unsure why
that is the case. We have come up with a survey to try and understand
the problem. It would be great if you could take this short 10-
question survey which tries to zero in on the problem. Results will be
made available on DIYbio when enough data points have been collected.
Please click on the link below to take the survey:
http://www.surveymonkey.com/s/SYJM23Q
For more information about the language:
http://research.microsoft.com/en-us/um/people/thies/thies- iwbda09.pdf
To know what BioCoder code looks like, you can check out the following
examples from OpenWetWare:
http://www.google.co.in/search?q=BioCoder+site% 3Aopenwetware.org&ie=utf-8&oe= utf-8&aq=t&client=firefox-a& rlz=1R1WZPB_en-GB___IN356 --
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<wetprotocol.png>
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