.

Author: albertmena

docs/Releases/Releases-scipion-em-xmipp/index.rst

@@ -1,5 +1,47 @@
 Releases scipion-em-xmipp
 =========================
+3.25.06 - XXX
+--------------------------
+- New protocols
+   - compute_likelihood: This protocol computes the likelihood of a set of particles with assigned angles when compared to a set of maps or atomic modelS
+
+- Protocols updated
+   - Max shift: tolerate movies without micrographs associated
+   - Highred: test updated
+   - substract_projection: update command to boost and subtract to generate only one output stack
+   - Movie alignment consensus protocol: enables irregular input sets
+   - volume_adjust_sub: better label for volume 1 vs 2
+   - convert_pdb: aDD binThreads
+   - align_volume: add possible
+   - movie_alignment_consensus: Changes in functionality; comparisons between ons between shifts trajectories, and a additional change related to the minimum consensus or threshold for shifts correlation.
+   - particle_pick_consensus: Fixed ID mismatch when combining coordinate sets; now supports asymmetrical sets without indexing errors.
+   - movie_split_frames: now allows testing sum_frames, includes a summary, improved layout, and updated test.
+   - deep_Consensus: GPU handling
+   - Deep_hand: handling env to avoid system CUDA settings,  erasing cuda things from env['LD_LIBRARY_PATH']
+   - Extract particles protocol: force output boxsize
+
+- Protocols fixed
+   - simulate ctf: fix pre-CTF noise np.numpy, init generator for pre and post ctf noise
+   - validate FSCQ: test fixed
+   - resolution_monogenic_signal: fixing header in MonoRes
+   - protocol_process: CropResize halves fix
+   - Extract particles test fixed
+   - FSO viewer: the fso was failing when the fso did not cross some thresholds
+   - reconstruct_significant: fix gpu usage
+   - ransac: fix gpu usage
+     
+- Protocols deprecated (For more details visit `this <https://github.com/I2PC/xmipp/wiki/Deprecating-programs-and-protocols](https://i2pc.github.io/docs/Utils/Deprecated-programs/index.html>`__)
+   - XmippProtScreenDeepLearning
+
+- More scipion-em-xmipp
+   - Most of the Xmipp dependencies installed on Scipion env
+   - Updating version for pypi requirements
+   - Bug cloning tag
+   - Use toml for installation
+   - Bug fixed related to the WriteSetOfParticles and the Missing ExtraLabels (The Oier and Fede Adventures)
+   - Handling nvidia drivers error message
+   - improving deps installation
+
 3.24.12 - Poseidon
 --------------------------
 - New protocols

docs/Releases/Releases-xmipp-program/index.rst

@@ -1,5 +1,38 @@
 Releases xmipp program
 =========================
+3.25.06 - XXX 
+------------------------
+Xmipp Programs 
+~~~~~~~~~~~~~~~
+   - New programs
+      - continuous_create_residuals: Make better residuals by continuous assignment updates to projections
+      - tomo_detect_landmarks: to detect landmarks in tilt series (TS)
+      - tomo_calculate_landmark_residuals: to calculate residuals in TS
+      - tomo_detect_misalignment_residuals: to detect misalignment from residuals in TS
+      - batch_tomo_misalignment_resid_statistics: Python script to calculate statistical metrics from a set of residuals
+      - tomo_tiltseries_detect_misalignment_corr: (legacy) for calculating relative shifts between tilt images, as a prealignment strategy
+
+   - Programs updated
+      - Particle subtraction: now generates a single stack + includes noise power estimation
+      - classify_pca: allows setting CUDA_DEVICE for NVIDIA drivers ≤ 470
+        
+   - Programs fixed
+      - Fixed missing b in angular_continuous_assign2_gpu
+      - CUDAFFT test fixed
+      - Minor compatibility fixes for CUDA 12.6
+      - DT_SChar added to micrographs
+        
+Installation and user guide
+~~~~~~~~~~~~~~~~~~~~~~~~~~~
+   - Fixed broken links in documentation
+   - Enhanced data collection steps (context suggests improvements in reproducibility or logging)
+     
+More Xmipp 
+~~~~~~~~~~~~~ 
+   - DLTK environments: channels limited to conda-forge and pip. Updated deepEMhancer version and models
+   - Allowing to skip sorting in metadata_vec::split
+
+
 3.24.12 - Poseidon 
 ------------------------
 Xmipp Programs