No code, No docker image

[ethanwillis]

I read the paper and went to the sbolstack.org website to find the promised source code.. I didn't see anything there. I just found this readme and was hopeful I would be able to get the Docker image promised.. and that link is dead.

As well the openrdf.org link on the sbolstack.org website links to a coupon site that seems to have bought that domain.

Is there anywhere I can get access to code?

[cjmyers]

This project has undergone some significant updates. The SBOLStack is now called SynBioHub, and the code has been substantially rewritten. More information can be found here: http://wiki.synbiohub.org/wiki/Main_Page Please let us know what your interest is and how we can help. Thanks, Chris

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On Sep 3, 2017, at 3:45 PM, Ethan Willis ***@***.***> wrote: I read the paper and went to the sbolstack.org website to find the promised source code.. I didn't see anything there. I just found this readme and was hopeful I would be able to get the Docker image promised.. and that link is dead. As well the openrdf.org link on the sbolstack.org website links to a coupon site that seems to have bought that domain. Is there anywhere I can get access to code? — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#1>, or mute the thread <https://github.com/notifications/unsubscribe-auth/ADWD965Q_1tY_mbiXdl1Ny6VuJ_ERIfgks5seywagaJpZM4PLU6U>.

[ethanwillis]

I initially found out about SynBioHub through Twitter. I thought it was an interesting idea and only recently had the time to start digging into the papers behind it.

I didn't have any specific research interest in any of this (not a synthetic bio person) until reading some papers tonight and seeing a question from someone at BioBricks, "How do you design a genome?". I'm going to setup a local synbiohub instance on my workstation when I get some free-time. Once I have that setup (and have loaded in some SBOL designs, do you know where I could easily download a database of them including biobricks-> SBOL designs?) I'm going to try my hand at creating a client application against the REST API that will attempt to annotate some genome sequences with the SBOL data.

[cjmyers]

Perhaps we can move the conversation of the issue tracker to email. My email address is (myers@ece.utah.edu). You should also cc the synbiohub-dev@googlegroups.com mailing list and also join that list, if you like. All the iGEM BioBrick parts are available from https://synbiohub.org. Normally, we do not wish to duplicate records in two databases, since the URI for the parts identify where they are located. SynBioHub has a REST API which is documented here: http://wiki.synbiohub.org/wiki/HTTP_API. It is also available programmatically via the SBOL java, C++, and Python libraries. This should allow you to fetch iGEM part data directly as desired. We are in the midst of enriching this API further and would appreciate feedback on that. If you create a SynBioHub instance, you should be able to add the other SynBioHub registries via our Web-of-Registries, so that if you were to say upload a GENOME to yours that is annotated with BioBricks from the reference instance, it would be able to link out to that information. We would be very happy to help you with this activity. Cheers, Chris

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On Sep 7, 2017, at 1:21 AM, Ethan Willis ***@***.***> wrote: I initially found out about SynBioHub through Twitter. I thought it was an interesting idea and only recently had the time to start digging into the papers behind it. I didn't have any specific research interest in any of this (not a synthetic bio person) until reading some papers tonight and seeing a question from someone at BioBricks, "How do you design a genome?". I'm going to setup a local synbiohub instance on my workstation when I get some free-time. Once I have that setup (and have loaded in some SBOL designs, do you know where I could easily download a database of them including biobricks-> SBOL designs?) I'm going to try my hand at creating a client application against the REST API that will attempt to annotate some genome sequences with the SBOL data. — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#1 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/ADWD9zlLQmX4rL2t1oXHHAP_KuALQdFBks5sf5mHgaJpZM4PLU6U>.