Phase Studio 1.0.6 hides the beta/experimental SharpED phasing methods behind an opt-in toggle, fixes a stale warning message and a convergence graph that went dead partway through a phase-recycling run, reorganizes the Basic settings tabs so each one holds a single, clear group of controls, and splits Help into a Basic guide and an Advanced guide that each explain every control on their own tabs.
This release provides standalone one-file executables for Windows and Linux. No separate Python installation is required.
Highlights
- Beta and experimental phasing methods are now hidden by default, not just labeled — a new opt-in setting reveals them
- Fixed the Phasing method warning message not reliably appearing/disappearing when switching methods
- Fixed the convergence graph going flat after cycle 1 during SharpED phase recycling — a new Map correlation metric tracks every cycle
- New Recommended starting preset, applied by default
- Basic tabs reorganized into Input → Workflow → Output → Help, each holding one coherent group of settings
- Map format gains two reflection-file export options: HKL reflections with phases and ShelX (fcf)
- Every dropdown menu now opens at the same, more compact size instead of varying from one control to the next
- Help is now split into a Basic guide and a new Advanced guide, each explaining every control on its own tabs
New: opt-in visibility for beta/experimental features
Advanced → Setup → Interface has a new checkbox, Show beta and experimental features in settings, unchecked by default. While it's off, the two SharpED phase-recycling phasing methods and the Symmetrize (beta) option are removed from the Basic tabs entirely — not grayed out, not present. Turning it on makes them selectable again; turning it back off while one is active safely falls back to standard Superflip.
Alongside this, the two methods are now named and worded more precisely:
- 1st Superflip, then SharpED (beta) — warns that it doesn't work well with some models.
- SharpED (experimental) — renamed from "SharpED (beta)"; warns that it doesn't work well yet and is intended for development, not production use.
Fixed: warning message and convergence graph during phase recycling
- The Phasing method warning callout could fail to show or hide reliably when switching methods, because its visibility was read back from Qt after being set, which layout state could get wrong. It now uses a single source of truth for the decision.
- The convergence graph previously went flat after cycle 1 whenever a SharpED phase-recycling method was selected, because every plotted metric came from Superflip's own log — and Superflip runs at most once in these methods. A new Map correlation metric (each cycle's recomposed map compared with the previous cycle's, requiring no reference structure or EDMA) now gives real per-cycle feedback and is written to
metrics.csv.
New: Recommended starting preset
Workflow preset is renamed Starting preset and gains a Recommended entry — a general-purpose baseline (cycles 5, Superflip, deblurred XPLOR next-cycle model, XPLOR damping 0.3, SharpED model "koala 2.0", all optional processing except symmetry averaging) that is now the default selection, matching the built-in defaults on a fresh install. The sample-type presets (MOF atomic/medium resolution, small molecule, inorganic) and custom are unchanged.
Reorganized: Basic tabs and Map format
- Basic → Model is gone. "Reference and initial model" moved to Input; the SharpED Model selector moved to Workflow; the remaining working-directory/format settings are now their own Output tab.
- Map format (Basic → Output) gains HKL reflections with phases and ShelX (fcf), replacing the separate "Save standardized HKL" checkbox — both save the observed reflections instead of an extra density map. Existing settings with that checkbox on carry over automatically.
- Every dropdown menu across the app now opens with the same compact row height instead of some being noticeably taller than others.
Split: Help now has a Basic guide and an Advanced guide
The single Help tab is now two: Basic → Help covers the Basic tabs (getting-started guide, plus new Input/Workflow/Output reference sections explaining every control there, and About); Advanced → Help is a new tab covering Setup/Superflip/EDMA/SharpED/Map feedback, each expanded into an exhaustive per-control reference, plus the raw Superflip keyword reference. "Open guide" buttons and F1 context help jump to the correct one automatically.
Full Changelog: v1.0.5...v1.0.6