From 07c8b2ddd4c9e00e02ec2f480e321e4a644648bb Mon Sep 17 00:00:00 2001 From: Filip Leonarski Date: Mon, 26 Oct 2026 14:43:18 +0100 Subject: [PATCH] docs: the Rugnux card and the naming table mention refinement and live collections Co-Authored-By: Claude Opus 5.5 Claude-Session: https://claude.ai/code/session_015CeEGgpKdfkCTJb3YNMJcu (cherry picked from commit f8d07397288137dd5e3a0e5c101f2036d51228bd) --- docs/NAMING.md | 2 +- docs/documentation.rst | 3 ++- 2 files changed, 3 insertions(+), 2 deletions(-) diff --git a/docs/NAMING.md b/docs/NAMING.md index fa6a7a83a..ce6cce2ed 100644 --- a/docs/NAMING.md +++ b/docs/NAMING.md @@ -7,7 +7,7 @@ steep mountain as efficiently as possible — usually by train. Throughput, in o | Part | Name | What it does | | --- | --- | --- | | Streaming / acquisition | **Jungfraujoch** | Receives detector data at high data rates, runs the FPGA/GPU pipeline, and streams images out for writing. | -| Data processing | **Rugnux** | Offline crystallographic analysis of a stored dataset — indexing, integration, scaling and merging (the [`rugnux`](RUGNUX.md) tool). | +| Data processing | **Rugnux** | Crystallographic analysis of a stored dataset, or of a collection while it is written — indexing, integration, scaling and merging, and refinement of a given model (the [`rugnux`](RUGNUX.md) tool). | ## Jungfraujoch diff --git a/docs/documentation.rst b/docs/documentation.rst index 0cdd8c704..7c43af867 100644 --- a/docs/documentation.rst +++ b/docs/documentation.rst @@ -16,7 +16,8 @@ Documentation

Processes a stored macromolecular diffraction dataset, a rotation sweep or serial stills, from the images to merged reflections: spot finding, indexing, integration, scaling and merging, with the space group, cell and resolution decided from the - data and a report that says on what evidence. One command, no parameters.

+ data and a report that says on what evidence; given an atomic model, it also places and refines + it against the merge. One command, no parameters.

rugnux <diffraction image file>

Linux · macOS · Windows · fast on an NVIDIA GPU, works without one