The TELL automatic sample changer for macromolecular crystallography

The TELL sample changer has been developed at the Paul Scherrer Institute with a focus on speed, storage capacity and reliability, to serve the three macromolecular crystallography beamlines of the Swiss Light Source, as well as the SwissMX instrument at SwissFEL.

Abstract

In this paper, the design and functionalities of the high-throughput TELL sample exchange system for macromolecular crystallography is presented. TELL was developed at the Paul Scherrer Institute with a focus on speed, storage capacity and reliability to serve the three macromolecular crystallography beamlines of the Swiss Light Source, as well as the SwissMX instrument at SwissFEL.

1. Introduction  

With the advent of fast X-ray detectors and the development of beamline automation, sample exchange has become a limiting step at macromolecular crystallography (MX) beamlines (Grimes et al., 2018 ▸). High-throughput projects, such as fragment-based screening campaigns, may involve the unattended data collection of over 200 crystals in a typical 8 h beam time shift (Collins et al., 2018 ▸). Therefore, the automatic sample changers of today need to feature high speed, high storage capacity, as well as high reliability. Other important aspects are minimum maintenance and the control of ice contamination inside the cryogenic storage dewar (Papp, Felisaz et al., 2017 ▸).

As a further step in this evolution of MX sample changers (Table 1 ▸), a sample-exchange system named TELL (high-throughput enabling large-capacity sample loader) has been developed at the Paul Scherrer Institute. TELL is in use or being deployed at each of the four goniometer-based MX measurement stations at both the Swiss Light Source and SwissFEL (Figs. S1–S4 of the supporting information). Such development allows for a modular construction, build-up of in-house expertise, faster problem solving and custom improvement possibilities.

Table 1. Existing sample changer systems at MX synchrotron beamlines.

For commercial systems, the supplier is mentioned. For up-to-date information about availability at a specific beamline, refer the beamline staff or to http://biosync.sbkb.org/.

Sample changer system	Reference
Multi-axis industrial robots
Stanford Automated Mounter	Cohen et al. (2002 ▸); Russi et al. (2016) ▸
G-Rob (Nat X-ray)	Jacquamet et al. (2004 ▸); le Maire et al. (2011) ▸
CATS (Irelec)	Ohana et al. (2004) ▸; Jacquamet et al. (2009 ▸)
ISARA (Irelec)	https://www.irelec-alcen.com/en/synchrotrons/X-ray-crystallography-isara-sample-changer
ACTOR (Rigaku)	Muchmore et al. (2000) ▸, https://www.rigaku.com/en/products/protein/actor
RoboDiff	Nurizzo et al. (2016) ▸
MARVIN	Cianci et al. (2017) ▸
Petra III P11 sample changer	http://photon-science.desy.de/facilities/petra_iii/beamlines/p11_bio_imaging_and_diffraction/crystallography_endstation/e254458/index_eng.html
BART	O’Hea et al. (2018 ▸)
FlexED8	Papp, Felisaz et al. (2017 ▸)
FlexHCD	McCarthy et al. (2018 ▸)
TELL	This work
Linear axis systems
SC3	Cipriani et al. (2006 ▸)
ALS Automounter	Snell et al. (2004 ▸)
SPACE	Ueno et al. (2004 ▸); Murakami et al. (2012 ▸, 2020 ▸)
PAM-HC	Hiraki et al. (2016 ▸)

2. The TELL sample changer  

2.1. Overview  

The main components of TELL are a support table, a TX60L or TX2-60L six-axis robotic arm (Stäubli AG, Pfäffikon, Switzerland) with motions programmed in VAL3, a cryogenic sample storage dewar (see next section), and automatically exchangeable grippers such as the SG-1 cryogenic gripper (suna-precision GmbH, Hamburg, Germany). All components of TELL are shown in Fig. 1 ▸. The cycle time for a sample exchange at the X06SA-PXI beamline is currently 24 s, with remaining potential for improvement in trajectories and beamline integration. A so-called dry-mounting procedure is used, with the gripper remaining in liquid nitro­gen between mounts. Robot safety is implemented in connection with the existing hutch interlock system.

Figure 1.

CAD-drawing of the TELL sample changer installed at the X06SA-PXI beamline at the Swiss Light Source. (1) Robotic arm, (2) cryogenic storage dewar with a lid, (3) lid rotation unit, (4) six-button interface of the Hexiposi controller for manual lid rotation, (5) puck loading tools, (6) puck barcode-reading station, (7) control touchscreen, (8) emergency stops, (9) sample gripper in cold position, (10) gripper exchange level, (11) pneumatic collision and overload protection (CSR50, Zimmer group, Rheinau, Germany), (12) gripper dryer, (13) gripper calibration laser sensor (ILD1320-50, micro-epsilon GmbH, Ortenburg, Germany), (14) pin barcode reader, (15) holder for beam alignment tools, (16) robot control unit, (17) PC running the PShell control system. The red arrow shows the beam axis, pointing at the sample position. All barcode readers are MicroHAWK ID-40 (Bibus AG, Fehraltorf, Switzerland).

2.2. Sample storage dewar  

2.2.1. Open dewar  

The sample storage dewar is a vacuum-insulated vessel, designed together with and fabricated by the company Demaco Holland bv Noord-Scharwoude, The Netherlands. It has a heating rim and is covered with a belt-driven motorized rotating lid (August Steinmeyer GmbH, Albstadt, Germany). Rotation is triggered through the home-developed Hexiposi control system, based on a myRIO controller (National Instruments, Austin, Texas, USA), operated either remotely by the PShell control system (see Section 2.3) or locally by the six-button manual interface (labelled 4 in Fig. 1 ▸) for puck loading. An opening in the lid plate provides access to each of the six segments of the base plate (see Section 2.2.2, Fig. 2 ▸). The formation of ice inside the dewar due to air humidity is prevented with a constant overflow of dry nitro­gen gas supplied at the top of the dewar vessel [arrows in Fig. 2 ▸(a)]. The liquid nitro­gen remains clean and allows for over six weeks of continuous operation.

Figure 2.

(a) CAD-drawing of the sample storage dewar, showing the heating rim (orange) and the lid rotation unit (brown) with a belt (yellow). The blue dashed line shows the level of liquid nitro­gen, controlled by pressure-based sensors. Pink arrows symbolize the flow of dry nitro­gen gas added. (b, c) CAD-drawings of a segment of the baseplate, showing ferromagnetic steel rings (grey discs), alignment pins (grey), elastic pins (green) and mechanical switches (red). The LED-lit holes are highlighted in yellow. A Unipuck base is present in position 1. (b) 3D view. (c) Top view.

2.2.2. Dewar base plate  

The dewar base plate has six segments [Figs. 2 ▸(b) and 2(c)] of five puck positions each, offering a total capacity of 30 Unipucks (480 samples). The presence of pucks is detected using one-wire addressed mechanical switches. The modular arrangement facilitates exchange and maintenance of the segments. Pucks are fixed in position by three alignment pins around the puck [Fig. 2 ▸(b)], one having an elastic construction. At each puck position, two holes [yellow in Fig. 2 ▸(c)] on the segment and the base plate can be used for both puck detection and recognition of its type, using a camera above the dewar and LED lighting under the base plate.

2.3. Controls  

A reliable and flexible high-level control system is implemented using PShell (Gobbo & Ebner, 2017 ▸), a Jython-based scripting platform. Scripts are developed to implement high-level workflows, device protocols, to interface to the Stäubli robot and to run image-processing tasks. Assisted recovery procedures are implemented by configuring safe robot trajectories between reference points and restricting volumes around these trajectories. If the robot stops inside these volumes following, for example, an emergency stop or collision, it can resume activity by moving to the axis of the safe path and then to the nearest reference point.

2.4. Beamline integration  

The TELL user GUI [Fig. 3 ▸(b)] is implemented in Python 3.6 using PyQt5 for the widgets. Communication with TELL is carried out via the REST interface provided by the PShell software. The TELL GUI also interacts with the beamline state machine (Wojdyla et al., 2018 ▸) to ensure that all devices are appropriately positioned for the sample changer to access the goniometer electromagnetic sample head. The TELL GUI is integrated in the beamline software system by ActiveMQ messaging. Messages sent by the TELL GUI are (i) about to mount, (ii) mount finished and (iii) mounted sample information.

Figure 3.

(a) Spreadsheet layout in Microsoft Excel format and (b) screenshot of the TELL user GUI. Brackets refer to macros for the data path and name.

2.5. User interaction  

Users first import a spreadsheet [Fig. 3 ▸(a)] with the sample information in the TELL GUI [Fig. 3 ▸(b)], then load pucks onto arbitrary positions using a puck handle and a guiding tool (labelled 5 in Fig. 1 ▸) inserted into the lid opening (Fig. S5). The lid can be manually rotated with the six-button Hexiposi interface (labelled 4 in Fig. 1 ▸). Puck position is assigned one by one, either manually on the touchscreen or automatically by scanning the barcode of the puck. Samples are selected for mounting in the TELL GUI table via a context menu [Fig. 3 ▸(b)].

3. Outlook  

TELL is being continuously improved for sample handling efficiency, user experience and reliability. A room-temperature gripper (Fig. S6) and sample storage box with controlled environment are under development. Depending on future beamline user requirements, possible upgrades of the system could include the development of a double-tong gripper for faster sample exchange (Hiraki et al., 2008 ▸), deployment of the MiniSPINE format (Papp, Rossi et al., 2017 ▸) for increased storage capacity, and handling of crystallization plates and fixed-target supports for in situ serial crystallography (Aller et al., 2015 ▸; Martiel et al., 2018 ▸).