Jmol Application Advanced Workshop on 12 September 2020

Introduction

The international participants are requested to read the instructions and payment guidelines before filling the Google form for Jmol workshop registration

Jmol Application  is a free and open source software developed in Java to view, create, and edit three-dimensional models of chemical structures, macromolecules (Crystal structures, Proteins, and Nucleic acids).  It is compatible with Windows, Mac and Linux Operating Systems. It is useful for classroom teaching  and presentations. Useful for students, educators, and researchers in chemistry, biochemistry and pharmacy.

Methodology of the Workshop

The interested participants have to register online and pay the registration fee. The registration form will be available until 7 September 2020. The registered participants will receive a mail consisting of one of the screening task assignments listed here to solve using Jmol Application. Participants will have to solve the assignment allotted by us and submit it, on or before 9 September 2020, 2.00 PM. The submitted assignment will then be reviewed by the Jmol Application expert team. If the submitted assignment is approved, the participants will be allowed to attend the “Jmol Application-Advanced” workshop. If the submitted assignment is not approved, those participants will be automatically registered to the “Jmol Application-Beginner” workshop. No separate fee will be charged for the participants who are moved from Jmol Application-Advanced to the Jmol Application-Beginner workshop. The decision of the FOSSEE team about the approval/rejection of the assignment is final. No request for refund of fee will be entertained, in case any participant doesn’t qualify to attend the Jmol Application-Advanced workshop. Final list of participants who are selected for Jmol Application-Advanced will be announced on 10 September 2020.

The “Jmol Application-Advanced” workshop will cover 4-hours of live/recorded online lectures on some advanced chemistry/biochemistry topics, demonstration of some selected features on the Jmol Application interface and watching advanced spoken tutorials on Jmol Application. Additionally, there will be a presentation/discussion session on the 3D models which the participants would have created to qualify for attending the advanced workshop.

Course content

The Jmol Application-Advanced workshop will have two parts (A & B).

A. About 4 hours of learning the below listed advanced topics on Jmol Application using a mix of live/recorded lectures, demonstration and pre-recorded spoken tutorials.

1.  Importance of three-dimensional visualization of molecules
2.  Stereochemistry and Chirality 
3.  Symmetry and Isomerism
4.  3D structures of Proteins, Enzymes, Nucleotides and Crystal structures
5.  Create Animations in Jmol and generate a GIF file
6.  How to incorporate Jmol views in PPT slides   

B. About 2 hours of discussion/presentation session on the 3D models created by the participants to qualify for attending the “Jmol Application-Advanced” workshop.

Teaching Faculty

• Prof. Santosh Gharpure, Department of Chemistry, IIT Bombay
• Prof. Nandita Madhavan, Department of Chemistry, IIT Bombay
• Dr. Snehalatha Kaliappan, Spoken Tutorial Project, IIT Bombay

Who Should Attend

This Jmol Application-Advanced workshop will be useful to students, faculty, and working professionals from the chemistry, pharmacy, biochemistry, and allied fields who have a working knowledge of Jmol Application and are already well aware of the Jmol Application Spoken Tutorials available under the basic level.
https://spoken-tutorial.org/tutorial-search/?search_foss=Jmol+Application&search_language=English

Please note that the participation in the Jmol Application-Advanced workshop is subject to the approval/disapproval of the submitted screening task as mentioned under the “Methodology of the Workshop” section.

Duration and Venue

The Jmol Application-Advanced workshop will be conducted online on Saturday 12 September 2020 from 10 A.M to 5 P.M

Criteria for Certification

Participation certificates will be provided to all participants after successful completion of the workshop, in an electronic form.

Participants who attend the workshop will be given an option to act as a TA (Teaching Assistant) for the Jmol Application-Beginner workshop to be conducted on 19 September 2020. All such participants will be given a TA certificate. Details about the responsibilities of a Teaching Assistant will be informed later.

Course Fee

How to Apply

The application will be strictly online, and no other mode of application will be entertained.
The link for online registration is :
http://www.it.iitb.ac.in/nmeict/workshopContent.html?workshopid=9XWpf-8-llSfb1KJMzYBHA

The registration form will be available until 07 September 2020. The registered participants will receive a mail consisting of one of the screening tasks listed here to create 3D models using Jmol Application. Participants will have to solve the task allotted by us and submit it on or before 9 September 2020, 4.00 PM. The submitted assignment will then be reviewed by the Jmol Application expert team. If the submitted simulation is approved, the participants will be allowed to attend the “Jmol Application-Advanced” workshop. If the submitted simulation is not approved, those participants will be automatically registered to the “Jmol Application-Beginner” workshop. No separate fee will be charged for the participants who are moved to the Jmol Application-Beginner workshop. The decision of the FOSSEE team about the approval/rejection of the task is final. No request for refund of fee will be entertained, in case any participant doesn’t qualify to attend the Jmol Application-Advanced workshop.

Accommodation

Not applicable

Note

• As the workshop is conducted online, it is mandatory to have a laptop and a working internet connection with good bandwidth.
• Screening task assignment involving the creation of 3D models using Jmol Application will be assigned by us.
• The assignment submitted to us will be reviewed by Jmol Application experts at FOSSEE.
• The decision of approval/rejection of the task by the FOSSEE team will be final.

Technical Requirements:

• It is mandatory to have Jmol Application Version 14.31.2 installed in the system to attend the workshop. 
• Jmol application requires Java 1.4 or higher. It is recommended, if possible, to install the latest Java version from Oracle. You can have it installed by visiting www.java.com and following instructions therein.
• The installation sheet is available here.
• Following operating systems can be used for installing Jmol Application:
• Jmol runs without problems on Windows 32/64-bit 9x/XP/Vista/7/8/10 computers using Sun's java virtual machines
• Jmol runs without problems on Linux machines using Sun's java virtual machines.
• Jmol is fully compatible with MacOS X with Java installed.

Contact Us

• Any queries related to the screening task you can write to us at workshops@spoken-tutorial.org
• Any queries related to spoken tutorials on Jmol Application can be asked through Spoken Tutorial Forums
• Any other general queries about the workshop can be sent to eoutreach@it.iitb.ac.in

Address For Communication

Mahendra Parmar,
Sr. Project Manager, ESOS Project
Department of CSE, Kanwal Rekhi Building,
Indian Institute of Technology Bombay,
Mumbai - 400 076.
Email: eoutreach@it.iitb.ac.in
Website - www.it.iitb.ac.in/nmeict