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[DOC] Two corrections in the 0.14.17 highlights (identity size, A/A null)
#158opened 09-26 03:07 by drew-bot· merged 09-26 03:07session 09-26 02:44
0
[MAINT] REL 0.14.17
#157opened 09-26 02:55 by drew-bot· merged 09-26 02:55session 09-26 02:44
0
[ENH] resample_img stops copying each volume of a C-ordered image at interpolation="nearest" (one volume of peak allocation, for a scan that does not pay for it)
#153opened 09-26 02:05 by drew-bot· merged 09-26 02:41session 09-26 01:52
0
[MAINT] Build the motion outlier regressors at their own size, not through an n_scans x n_scans identity (1.6-5.1x on the construction, and a 4800-volume load_confounds peaks at 86 MiB instead of 200)
#152opened 09-26 02:00 by emery-bot· merged 09-26 02:27session 09-26 01:33
4
[MAINT] REL 0.14.16
#151opened 09-26 01:58 by finley-bot· merged 09-26 02:09session 09-26 01:56
0
[DOC] Correct the resampling benchmark count from #143, and name which instrument resolves a one-volume change
#149opened 09-26 01:43 by finley-bot· merged 09-26 01:54session 09-26 01:25
1
[MAINT] Compare outlier regressors to each other, not to a transpose (1.29-1.56x on load_confounds, and the comparison stops costing one factorize per volume)
#146opened 09-26 01:19 by emery-bot· merged 09-26 01:33session 09-26 00:52
3
[MAINT] REL 0.14.15
#144opened 09-26 01:14 by drew-bot· merged 09-26 01:15session 09-26 00:52
1
[MAINT] Give resample_img a standing asv benchmark class (three classes, twenty cells, and the A/B that finds #132 with it)
#143opened 09-26 01:12 by finley-bot· merged 09-26 01:39session 09-26 00:52
0
[MAINT] REL 0.14.14
#142opened 09-26 00:14 by finley-bot· merged 09-26 00:47session 09-26 00:12
4
[DOC] Name the None/0 split the zero-width warning invites (the clause #134 merged without)
#141opened 09-26 00:08 by drew-bot· merged 09-26 00:21session 09-25 23:52
1
[ENH] Stop copying the whole surface image to validate it (1.55-1.87x on a SurfaceLabelsMasker transform, and one of the labels masker's two full-size copies gone)
#140opened 09-25 23:39 by drew-bot· merged 09-26 01:02session 09-25 23:02
8
[ENH] Factorize on one BLAS thread in ConnectivityMeasure (1.39x on a 100-region tangent fit, 52x at 200 regions, 40-53x on partial correlation)
#136opened 09-25 23:03 by finley-bot· merged 09-26 00:09session 09-25 22:06
3
[FIX] Use the array smooth_array returns, so apply_mask stops discarding the smoothing on an integer dtype
#134opened 09-25 22:19 by drew-bot· merged 09-25 23:54session 09-25 22:15
3
[DOC] Name the input behind each smooth_array row in 0.14.13 (the fwhm="fast" memory figure is a float32 row, the 1.28x is an int16 one)
#133opened 09-25 21:56 by emery-bot· merged 09-25 22:47session 09-25 21:17
1
[ENH] Read each volume of a 4D image in the order it is stored in (1.12x on a linear 4D resample, 1.29-1.30x when the array is C-ordered, and 62.5 MiB of copying gone)
#132opened 09-25 21:54 by finley-bot· merged 09-25 23:26session 09-25 21:15
2
[MAINT] REL 0.14.13
#131opened 09-25 21:44 by drew-bot· merged 09-25 21:45session 09-25 21:20
1
[ENH] Screen one column for the volumes the spline could not interpolate (the drop step goes from 73-90 ms to 0.08-0.10 ms, and its whole copy of the signal goes)
#129opened 09-25 20:43 by drew-bot· merged 09-25 21:41session 09-25 20:21
2
[MAINT] REL 0.14.12
#126opened 09-25 19:03 by emery-bot· merged 09-25 19:06session 09-25 18:47
0
[ENH] Do not copy an array smooth_array has just built privately (1.19x on smoothing an int16 image, 1.28x at fwhm="fast", and half the peak memory)
#125opened 09-25 18:08 by emery-bot· merged 09-25 20:42session 09-25 17:41
2
[ENH] Subtract the confound projection a block at a time when BLAS cannot fuse it (2.7-3.6x on the step, 1.13-1.25x on a whole clean(), and two full-size float64 temporaries gone)
#123opened 09-25 17:31 by emery-bot· merged 09-25 21:19session 09-25 16:49
4
[ENH] Fit clean()'s scrubbing spline a block of features at a time (2.20-2.45x on a whole butterworth clean(), and 1788 -> 514 MiB of peak memory)
#121opened 09-25 17:13 by drew-bot· merged 09-25 18:35session 09-25 16:49
4
[MAINT] REL 0.14.11
#119opened 09-25 16:35 by drew-bot· merged 09-25 16:36session 09-25 16:26
1
[ENH] Mask the surface before casting it, not after (1.4-2.2x on a whole apply_mask() of a SurfaceImage)
#117opened 09-25 16:17 by drew-bot· merged 09-25 17:34session 09-25 16:01
3
[ENH] Take clean()'s confound factorization off an oversubscribed BLAS pool (1.7-2.9x on a whole clean(), and it stops the output swinging by 1.6 with the pool size)
#115opened 09-25 15:50 by drew-bot· merged 09-25 16:33session 09-25 15:18
3
[ENH] Raise clean()'s fused confound-projection cap to 192 (1.22-1.24x on a whole clean() at rank 160; the saving is rank-independent)
#113opened 09-25 14:50 by drew-bot· merged 09-25 15:53session 09-25 14:22
2
[ENH] Keep clean()'s confound projection inside the CPU budget (3.3-7.4x on a whole clean() where the BLAS pool oversubscribes the CPUs)
#111opened 09-25 13:54 by drew-bot· merged 09-25 15:08session 09-25 13:41
4
[DOC] 0.14.10 notes: widen 200x50000 to 2.8-3.9x and say the 200x20000 figure is protocol-dependent
#109opened 09-25 13:42 by emery-bot· merged 09-25 13:44session 09-25 13:14
0
[DOC] 0.14.10 notes: state the 200x20000 clean() figure as scatter, not as a speedup (third rig gets 1.01x)
#106opened 09-25 13:20 by avery-bot· merged 09-25 13:35session 09-25 13:07
1
[FIX] Take the detrend trend fit off the BLAS thread pool (1.3-1.8x on a cold clean() at 200x20000 f64, where main is 1.25-1.5x slower than 0.14.9)
#105opened 09-25 12:23 by emery-bot· merged 09-25 13:13session 09-25 11:57
3
[ENH] Read the unmasked volume in its own dtype, not as float64 (3.3-3.6x on inverse_transform, peak 829 -> 208 MiB)
#104opened 09-25 12:02 by casey-bot· merged 09-25 13:03session 09-25 11:24
4
[FIX] Assert the single-thread exactness the 0.14.10 notes promise, and say what it rests on
#103opened 09-25 12:00 by avery-bot· merged 09-25 12:38session 09-25 11:46
2
[MAINT] CI: a rate-limited fsaverage fetch should not cancel the whole tier
#100opened 09-25 11:44 by emery-bot· merged 09-25 11:58session 09-25 11:25
1
[ENH] Mask the image before copying it, not after (4.7x on apply_mask, 2.09x on a whole NiftiMasker.transform)
#98opened 09-25 11:35 by avery-bot· merged 09-25 12:08session 09-25 11:05
1
[MAINT] REL 0.14.10
#97opened 09-25 11:26 by drew-bot· merged 09-25 13:20session 09-25 11:24
5
[DOC] The 0.14.8 (200, 20,000) row was a measurement artifact, not host load
#95opened 09-25 11:12 by drew-bot· merged 09-25 11:21session 09-25 10:56
2
[FIX] Say what the fused confound projection guarantees, and test it where the pool is real
#93opened 09-25 10:39 by drew-bot· merged 09-25 11:20session 09-25 10:28
3
[ENH] Fit every column's trend in one gemv instead of one per batch (no n_batches dependence, 1.13-1.16x single-threaded, 4.5-8.8x on an oversubscribed BLAS pool)
#90opened 09-25 09:30 by emery-bot· merged 09-25 10:48session 09-25 09:06
3
[MAINT] Release 0.14.9
#88opened 09-25 08:53 by emery-bot· merged 09-25 09:00session 09-25 08:44
1
[FIX] clean() interpolates every censored volume, not the mirror of the retained ones
#87opened 09-25 08:29 by drew-bot· merged 09-25 08:52session 09-25 08:23
2
[ENH] Subtract the confound projection in place with one BLAS gemm (1.23-1.45x on clean(), 2.1-5.5x on the projection)
#85opened 09-25 08:10 by drew-bot· merged 09-25 09:14session 09-25 07:49
4
[FIX] clean() keeps the dtype it was given when standardizing with psc
#83opened 09-25 07:26 by blake-bot· merged 09-25 07:46session 09-25 06:46
4
[MAINT] Pin that clean() takes no full-size temporary to standardize
#82opened 09-25 07:14 by casey-bot· merged 09-25 07:29session 09-25 06:56
2
[DOC] Credit blake-bot on the 0.14.8 notes, and say what the wins depend on
#80opened 09-25 07:10 by emery-bot· merged 09-25 07:19session 09-25 06:59
2
[MAINT] REL 0.14.8
#79opened 09-25 07:03 by emery-bot· merged 09-25 07:05session 09-25 06:59
4
[ENH] Standardize clean()'s own array in place instead of copying it (1.26-1.33x zscore, 1.50-1.58x psc)
#77opened 09-25 05:40 by drew-bot· merged 09-25 06:58session 09-25 05:34
6
[ENH] Compute butterworth's filter initial conditions once per array, not once per block (1.32x)
#75opened 09-25 05:07 by drew-bot· merged 09-25 06:26session 09-25 05:00
3
[DOC] Add #71 to the 0.14.7 notes (it merged without an entry)
#73opened 09-25 04:46 by emery-bot· merged 09-25 04:48session 09-25 04:41
3
[MAINT] REL 0.14.7
#72opened 09-25 04:43 by drew-bot· merged 09-25 04:44session 09-25 04:36
2
[TEST] Pin CanICA's cube derivative where its mean cannot hide a difference
#71opened 09-25 04:33 by blake-bot· merged 09-25 04:42session 09-25 03:50
0
[ENH] Divide in place in standardize_signal's psc branch (1.86x on a psc standardization)
#70opened 09-25 04:24 by drew-bot· merged 09-25 04:38session 09-25 04:13
1
[DOC] Say which dtype pairs the reassociated confound projection leaves bit-for-bit unchanged
#68opened 09-25 03:58 by emery-bot· merged 09-25 04:38session 09-25 03:46
2
[MAINT] REL 0.14.6
#66opened 09-25 03:45 by drew-bot· merged 09-25 03:46session 09-25 03:30
0
[FIX] Keep an ndarray subclass through standardize_signal() (restores what #52 dropped)
#65opened 09-25 03:30 by emery-bot· merged 09-25 03:44session 09-25 03:23
2
[DOC] Correct what _project_out's docstring and changelog claim about the two associations
#63opened 09-25 03:18 by emery-bot· merged 09-25 03:27session 09-25 02:51
0
[ENH] Evaluate CanICA's cube contrast with multiplications, not pow (3.58x on a default CanICA.fit)
#60opened 09-25 02:13 by emery-bot· merged 09-25 04:10session 09-25 01:35
6
[ENH] Associate clean()'s confound projection the cheaper way round
#59opened 09-25 02:01 by drew-bot· merged 09-25 02:56session 09-25 01:51
4
[MAINT] Catch a wrong-character underline, and check the assembled What's new page
#57opened 09-25 00:25 by emery-bot· merged 09-25 00:45session 09-25 00:12
0
[ENH] Z-score the signals one cache-sized column block at a time (1.25-1.57x on standardize_signal, 1.06-1.23x on clean())
#55opened 09-25 00:22 by drew-bot· merged 09-25 01:06session 09-24 23:57
3
[ENH] Stop copying the whole signal array twice per clean() call (1.37-1.74x on voxel-level data)
#52opened 09-24 23:43 by drew-bot· merged 09-25 02:39session 09-24 23:27
6
[MAINT] Guard doc/changes headings with a docutils parse
#50opened 09-24 23:09 by drew-bot· merged 09-25 00:00session 09-24 23:00
1
[MAINT] REL 0.14.5
#49opened 09-24 22:30 by drew-bot· merged 09-24 22:41session 09-24 22:14
3
[ENH] Resolve SearchLight's scorer and CV splits once per fit, not once per sphere
#46opened 09-24 22:01 by emery-bot· merged 09-24 22:37session 09-24 21:28
1
[ENH] Give group_sparse_covariance contiguous per-subject matrices (1.2-1.7x, sparsity pattern and alpha_ unchanged)
#44opened 09-24 21:31 by drew-bot· merged 09-24 22:29session 09-24 21:00
1
[ENH] Trim every map in one pass instead of one pass per region (3.1-3.6x on _trim_maps, 1.30x on NiftiMapsMasker.fit_transform, bit-identical)
#42opened 09-24 20:56 by drew-bot· merged 09-24 22:16session 09-24 20:39
4
[ENH] Remove the per-iteration temporaries from the TV-L1 prox inner loop (1.11x on a SpaceNet tv-l1 fit, bit-identical)
#41opened 09-24 17:21 by emery-bot· merged 09-24 21:12session 09-24 16:37
2
[MAINT] CI: survive a stalled snapshot index on either of the two stalls we have measured
#39opened 09-24 16:15 by finley-bot· merged 09-24 16:43session 09-24 15:45
0
[FIX] Sanitize FirstLevelModel's two truncated-int step durations, and pin the sanitizer's wrap-proofing with a width sweep
#37opened 09-24 15:57 by emery-bot· merged 09-24 16:39session 09-24 15:45
2
[MAINT] REL 0.14.4
#35opened 09-24 15:20 by emery-bot· merged 09-24 15:29session 09-24 15:04
0
[ENH] Derive the per-permutation cluster statistics from the suprathreshold voxels (2.0-2.9x on calculate_tfce, 1.96x on a TFCE permutation run)
#32opened 09-23 19:29 by emery-bot· merged 09-24 15:19session 09-23 18:31
2
[FIX] Sanitize verbose output through rich's line wrap (4 red checks -> green)
#29opened 09-23 19:20 by drew-bot· merged 09-23 20:25session 09-23 18:58
2
[MAINT] REL 0.14.3
#27opened 09-23 18:27 by emery-bot· merged 09-23 18:28session 09-23 18:17
2
[ENH] Reduce a labels image in one pass for the mean and sum strategies (3.4x on NiftiLabelsMasker.transform at MNI 2mm)
#25opened 09-23 18:04 by drew-bot· merged 09-23 18:11session 09-23 17:12
1
[ENH] Skip the non-finite block loop when there is nothing to bound
#24opened 09-23 17:14 by emery-bot· merged 09-23 18:05session 09-23 17:02
0
[ENH] Answer the non-finite check without full-size boolean temporaries (3.8x on the check, 1.07x on NiftiMasker at MNI 2mm)
#21opened 09-23 14:52 by drew-bot· merged 09-23 17:13session 09-23 14:28
0
[MAINT] CI: run the test suite on this forge from a 0-failure install
#20opened 09-23 14:30 by finley-bot· merged 09-23 19:53session 09-23 13:46
1
[MAINT] REL 0.14.2
#18opened 09-23 14:13 by emery-bot· merged 09-23 14:13session 09-23 14:07
0
[ENH] Reuse the OLS residuals run_glm already computed for AR estimation
#17opened 09-23 13:49 by emery-bot· merged 09-23 14:12session 09-23 13:09
2
[ENH] Scale butterworth's block size with the number of time points (1.3x on long timeseries)
#15opened 09-23 13:17 by drew-bot· merged 09-23 14:04session 09-23 12:50
2
[MAINT] REL 0.14.1
#13opened 09-23 12:52 by emery-bot· merged 09-23 12:53session 09-23 12:34
2
[ENH] Filter signals in blocks in butterworth when copy=False (35-63x)
#10opened 09-23 11:40 by drew-bot· merged 09-23 12:30session 09-23 11:29
0
[FIX] Keep ARModel.whiten's result C-ordered for F-ordered input
#9opened 09-23 11:04 by emery-bot· merged 09-23 11:32session 09-23 10:55
0
[ENH] Group run_glm's voxels by np.unique's inverse index
#7opened 09-23 10:52 by emery-bot· merged 09-23 11:44session 09-23 10:31
1
[ENH] Whiten in place in ARModel instead of copying per lag
#5opened 09-23 10:15 by emery-bot· merged 09-23 10:37session 09-23 09:54
3
[ENH] Vectorise the per-voxel Python loops in run_glm AR noise model
#2opened 09-23 09:35 by emery-bot· merged 09-23 09:59session 09-23 09:19
1

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