Please select a topic:

  1. Notify NYX staff of your intent to register as a user.
    1. Let us know if you will be remote, on-site or both.
    2. Request the proposal number.
    3. Wait until you have confirmation from staff before moving to step 2.
  2. Register as a user with the BNL Guest Information system for site access:
    1. Purpose of visit: User
    2. Name of host: Kevin Battaile
    3. Department: .NSLS 2 Facility Users (LTU)
    4. Research facility: NSLS2

NOTE: Wait until this step is done before moving to step 3. The lab recommends registering 30 days in advance of your visit date. It may take in excess of 45 days for foreign nationals to have their appointment approved.

  1. Request a BNL computer account:
  2. Install DUO Security on your mobile device:
    1. iOS:
    2. Android:
  3. Register with DUO Federal:
  4. OPTIONAL: Install the Cisco VPN client: this isn’t needed for NX but may be useful for other BNL services.
  5. Install NoMachine client on your computer:

NYSBC consortium members should directly contact Kevin Battaile (email: or; phone: 631-344-6331) for scheduling or for any questions related to the suitability of experiments to be done at NYX. The current schedule for NYSBC members can be viewed here. Beam time can be scheduled on short notice for pre- frozen samples and where no wet-lab access is required. Staff will manage the safety paperwork with NSLS-II after discussion about the planned experiments and what samples are being sent.

The remote connection to NYX will be enabled immediately prior to your data collection session. If you are unable to connect, it is possible that your account has not been enabled by beamline staff.

  1. Use NX to connect to using your BNL domain account. Optionally, you can connect to with a web browser and skip step 1a. Performance of the web client is not as good as the desktop app. We recommend that the desktop app be used to connect to the beamline.
    1. For a first-time connection, click ‘New’ and use the following options for the NX connection.
      1. NX protocol
      2. Host =
      3. Port = 4000
      4. Use password authentication
      5. Don’t use a proxy

NOTE: When connecting to the NX cloud server, you will get a DUO push that you need to respond to. It isn’t explicitly stated that this is happening and looks like the connection is frozen, so check your cell phone.

  1. Select ‘NYX WS-3 NX server’ to connect to the data collection computer.
    1. Select WS-4, WS-5, WS-6 or WS-7 for data processing.
    2. DO NOT do data processing on WS-3.
  2. Select ‘Create a new virtual desktop’.
  3. When you are finished, simply close the NX application.

Troubleshooting: If you are unable to connect using the desktop app at your institution but can with the web app, it is likely that your institution is blocking the ports required for NX to communicate and you will need to solve this with your local IT department.

  • ONLY UniPuck v1 pucks are supported.
  • No other puck types will be loaded in the robot.
  • Samples will not be moved to UniPucks by staff.
  • Non-conforming pucks will be returned to the user.

SPINE, ALS and SAM bases can be used with the robot. We recommend SPINE bases to maintain compatibility with the other NSLS-II beamlines.

Pin length should be standard 18mm.

Ship your dewar to the following address.

Be sure to include a FedEX Express return shipping tag. FedEX Ground, UPS, DHL or other carrier will not be shipped back or may experience a shipping delay

National Synchrotron Light Source II
740 Brookhaven Avenue
Bldg. 740 – Loading Dock
Upton, NY 11973-5000
Attn: 19ID-NYX, Kevin Battaile

You will need to log in to Globus with your BNL account to access your data.

In the file manager, select ‘NSLS2’ for the collection. If your credentials are accepted, you should see the files in your home directory at BNL.

Set the path as shown in the graphic below.

  1. In the path, the beamline can be nyx (amx, fmx, lix, …) depending on the beamline you used.
  2. The operating cycle can be changed if you want to download older data (if it exists). The graphic is set for the 2023-1 operating cycle. Change this as needed.
  3. The proposal number at the end can also be changed depending on what proposal you were operating under to collect your data.
    Set up a destination directory for the data to be transferred to.

Select the directory containing your directory and press ‘Start’ to start the data transfer.

NOTE: Your institution may block Globus as part of their IT policy. If this is the case, you will need to work with them for a policy exception.

Data storage is managed and operated by BNL. Currently, their data retention policy is dependent on the amount of space they have available on their storage. As of June 2023, it may be reasonable to expect that your data will be here for a year.

BNL, NYX and NYSBC are not providing a data archival service.


The following acknowledgement statements must be used in any publication that used data from experiments conducted at NYX:

NYX Acknowledgement statement:

Use of the NYX beamline 19-ID at the National Synchrotron Light Source II was supported by the New York Structural Biology Center.

NSLS-II Acknowledgement statement:

This research used resources of the National Synchrotron Light Source II, a U.S. Department of Energy (DOE) Office of Science User Facility operated for the DOE Office of Science by Brookhaven National Laboratory under Contract No. DE-SC0012704.

Data collected with the Eiger2 detector (installed after April 1, 2022) must include the following statement:

NYX detector instrumentation was supported by grant S10OD030394 through the Office of the Director, National Institutes of Health.

PDB depositions must include the following in the ‘funding’ if the Eiger2 detector was used:

Funding Organization: Office of the Director, National Institutes of Health
Location: United States
Grant Number: S10OD030394