Hi I have been using ChimeraX for some time to generate .stl files and print various molecules and molecular scenes. I planning/working on making the pdb to stl file conversion semi-automatic and more user friendly by offering the users some predefined 3D-printable renderings of the molecule of their choice as well as some simple push-buttons that would allow them to do some very simple customisation in the renderings. Everything needs to be packaged in a simple to acces web-page that can be used by educators and students . In a way similar to how NIHPresets work, but in a webpage. Or how NIH 3D QuickSubmit works, but more interactive. Is there a way to embed ChimeraX into web pages as it can be done with, for example, with JSmol (Jmol)? If yes, could someone please point me in the right direction? Thanks --------- Marius Mihasan, PhD. Habil. Professor, BioActive Research Group Biochemistry and Molecular Biology Laboratory, Faculty of Biology Alexandru Ioan Cuza University of Iasi Room B228, Carol I Blvd, no 20A, Iasi, Romania, 700506 Tel: +40(0)232202434 Fax: +40(0)232201472 http://cercetare.bio.uaic.ro/cadre/pagini-personale/marius.mihasan/index.htm... Associate Professor Darie Biochemistry & Proteomics Group Department of Chemistry & Biomolecular Science Clarkson University Potsdam, NY 13699-5810, USA mmihasan@clarkson.edu
Hi Marius, ChimeraX is written in Python and C++ and runs on Mac, Windows, and Linux. It will not run in a web browser since there is no JavaScript implementation of ChimeraX. You would have to provide a server that runs ChimeraX on one of the supported operating systems and make a web page that talks to that server, a complex task. That is what the NIH 3D web site does to create output of STL or GLTF from atomic models submitted through the web browser. https://3d.nih.gov/ Tom
On Dec 10, 2024, at 9:26 AM, Marius Mihasan via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi I have been using ChimeraX for some time to generate .stl files and print various molecules and molecular scenes. I planning/working on making the pdb to stl file conversion semi-automatic and more user friendly by offering the users some predefined 3D-printable renderings of the molecule of their choice as well as some simple push-buttons that would allow them to do some very simple customisation in the renderings. Everything needs to be packaged in a simple to acces web-page that can be used by educators and students . In a way similar to how NIHPresets work, but in a webpage. Or how NIH 3D QuickSubmit works, but more interactive. Is there a way to embed ChimeraX into web pages as it can be done with, for example, with JSmol (Jmol)? If yes, could someone please point me in the right direction? Thanks --------- Marius Mihasan, PhD. Habil. Professor, BioActive Research Group Biochemistry and Molecular Biology Laboratory, Faculty of Biology Alexandru Ioan Cuza University of Iasi Room B228, Carol I Blvd, no 20A, Iasi, Romania, 700506 Tel: +40(0)232202434 Fax: +40(0)232201472 http://cercetare.bio.uaic.ro/cadre/pagini-personale/marius.mihasan/index.htm... www.molecularmodels.ro
Research Associate Professor Darie Biochemistry & Proteomics Group Department of Chemistry & Biomolecular Science Clarkson University Potsdam, NY 13699-5810, USA mmihasan@clarkson.edu
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Just to supplement Tom's answer, if you go the route of having ChimeraX as a backend, you can have it generate files that can be directly manipulated as 3D renderings in the browser, as described here: https--www.rbvi.ucsf.edu-chimerax-data-gltf-viewer-may2023 <https://www.rbvi.ucsf.edu/chimerax/data/gltf-viewer-may2023/> --Eric Eric Pettersen UCSF Computer Graphics Lab
On Dec 10, 2024, at 11:01 AM, Tom Goddard via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi Marius,
ChimeraX is written in Python and C++ and runs on Mac, Windows, and Linux. It will not run in a web browser since there is no JavaScript implementation of ChimeraX. You would have to provide a server that runs ChimeraX on one of the supported operating systems and make a web page that talks to that server, a complex task. That is what the NIH 3D web site does to create output of STL or GLTF from atomic models submitted through the web browser.
Tom
On Dec 10, 2024, at 9:26 AM, Marius Mihasan via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi I have been using ChimeraX for some time to generate .stl files and print various molecules and molecular scenes. I planning/working on making the pdb to stl file conversion semi-automatic and more user friendly by offering the users some predefined 3D-printable renderings of the molecule of their choice as well as some simple push-buttons that would allow them to do some very simple customisation in the renderings. Everything needs to be packaged in a simple to acces web-page that can be used by educators and students . In a way similar to how NIHPresets work, but in a webpage. Or how NIH 3D QuickSubmit works, but more interactive. Is there a way to embed ChimeraX into web pages as it can be done with, for example, with JSmol (Jmol)? If yes, could someone please point me in the right direction? Thanks --------- Marius Mihasan, PhD. Habil. Professor, BioActive Research Group Biochemistry and Molecular Biology Laboratory, Faculty of Biology Alexandru Ioan Cuza University of Iasi Room B228, Carol I Blvd, no 20A, Iasi, Romania, 700506 Tel: +40(0)232202434 Fax: +40(0)232201472 http://cercetare.bio.uaic.ro/cadre/pagini-personale/marius.mihasan/index.htm... www.molecularmodels.ro
Research Associate Professor Darie Biochemistry & Proteomics Group Department of Chemistry & Biomolecular Science Clarkson University Potsdam, NY 13699-5810, USA mmihasan@clarkson.edu
_______________________________________________ ChimeraX-users mailing list -- chimerax-users@cgl.ucsf.edu To unsubscribe send an email to chimerax-users-leave@cgl.ucsf.edu Archives: https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/
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Got it. Thank you all. --------- Marius Mihasan, Prof. Dr. Abilitat Grupul de Cercetare BioActive, Laboratorul de Biochimie si Biologie Moleculara, Sala B228 Universitatea Alexandru Ioan Cuza din Iasi, Facultatea de Biologie B-vdul Carol I, nr 20A, Iasi, Romania, 700506 Tel: +40(0)232202434 Fax: +40(0)232201472 http://cercetare.bio.uaic.ro/cadre/pagini-personale/marius.mihasan/index.htm... Asociat Grupul de Biochimie si Proteomica Darie Departmentul de Chimie si Stiinte Biomoleculare Universitatea Clarkson Potsdam, NY 13699-5810, USA mmihasan@clarkson.edu
On 10 Dec 2024, at 9:25 PM, Eric Pettersen <pett@cgl.ucsf.edu> wrote:
Just to supplement Tom's answer, if you go the route of having ChimeraX as a backend, you can have it generate files that can be directly manipulated as 3D renderings in the browser, as described here: https--www.rbvi.ucsf.edu-chimerax-data-gltf-viewer-may2023 <https://www.rbvi.ucsf.edu/chimerax/data/gltf-viewer-may2023/>
--Eric
Eric Pettersen UCSF Computer Graphics Lab
On Dec 10, 2024, at 11:01 AM, Tom Goddard via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi Marius,
ChimeraX is written in Python and C++ and runs on Mac, Windows, and Linux. It will not run in a web browser since there is no JavaScript implementation of ChimeraX. You would have to provide a server that runs ChimeraX on one of the supported operating systems and make a web page that talks to that server, a complex task. That is what the NIH 3D web site does to create output of STL or GLTF from atomic models submitted through the web browser.
On Dec 10, 2024, at 9:26 AM, Marius Mihasan via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hi I have been using ChimeraX for some time to generate .stl files and print various molecules and molecular scenes. I planning/working on making the pdb to stl file conversion semi-automatic and more user friendly by offering the users some predefined 3D-printable renderings of the molecule of their choice as well as some simple push-buttons that would allow them to do some very simple customisation in the renderings. Everything needs to be packaged in a simple to acces web-page that can be used by educators and students . In a way similar to how NIHPresets work, but in a webpage. Or how NIH 3D QuickSubmit works, but more interactive. Is there a way to embed ChimeraX into web pages as it can be done with, for example, with JSmol (Jmol)? If yes, could someone please point me in the right direction? Thanks --------- Marius Mihasan, PhD. Habil. Professor, BioActive Research Group Biochemistry and Molecular Biology Laboratory, Faculty of Biology Alexandru Ioan Cuza University of Iasi Room B228, Carol I Blvd, no 20A, Iasi, Romania, 700506 Tel: +40(0)232202434 Fax: +40(0)232201472 http://cercetare.bio.uaic.ro/cadre/pagini-personale/marius.mihasan/index.html>>> http://www.molecularmodels.ro>>> Research Associate Professor Darie Biochemistry & Proteomics Group Department of Chemistry & Biomolecular Science Clarkson University Potsdam, NY 13699-5810, USA mmihasan@clarkson.edu
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participants (3)
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Eric Pettersen -
Marius Mihasan -
Tom Goddard