Rapidtide

Latest version: v2.9.9.5

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3.0alpha1

* (rapidtide) The ``--fixdelay`` option has been split into two options. ``--initialdelay DELAY`` lets you specify either a float that sets the starting delay for every voxel to that value, or a 3D file specifying the initial delay for each voxel. ``--nodelayfit`` determines whether the delay can be adjusted from its initial value. Closes https://github.com/bbfrederick/rapidtide/issues/171. KNOWN ISSUE: If you supply an initial delay map, instead of using the global mean, rapidtide should use the delays to make your first stage regressor. Currently that is not the case.
* (rapidtide) Reorganized command line options and adjusted the default values.
* (rapidtide) Help output now shows the filter ranges.
* (rapidtide, retroglm) Added delay refinement using the ratio of the fit coefficients of the regressor and its time derivative.
* (rapidtide, retroglm) Fixed a bad shared memory leak.
* (retroglm) Significantly enhanced logging.
* (retroglm) Added canary files.
* (rapidtide) Implemented delay map patching.
* (rapidtide) Write out individual EV timecourses.
* (Docker) Cleaned up some internal variables.
* (Docker) Improved build and testing scripts.
* (io) Added function to compare nifti files with some tolerance.
* (docs) Automated more table generation.
* (package) Merged some dependabot PRs.
* (package) Fixed a fairly big, but not necessarily impactful bug. mlregress returned R2, not R, so anything referring to the R of a fit was actually squared (R was actually R2, R2 was actually R4). NB: this does NOT affect the calculation of maxcorrsq, which does not use mlregress.

2.9.9.5

* (deployment) New idea - split the README.rst file to remove potentially offending reference stuff.

2.9.9.4

* (deployment) Attempt to fix deployment by essentially giving up.

2.9.9.3

* (deployment) Yet another attempt to fix deployment.

2.9.9.2

* (rapidtide) Fixed https://neurostars.org/t/indexing-error-during-regressor-refinment/30790
* (rapidtide) Addressed https://github.com/bbfrederick/rapidtide/issues/175
* (rapidtide) Added the ability to mask data before spatial filtering.
* (rapidtide) Revised shared memory access to use more modern interface.
* (rapidtide) Clarified option descriptions in help output.
* (Docker) Temporary workaround for https://github.com/bbfrederick/rapidtide/issues/180
* (deployment) Tried to fix pypi deployment.
* (showtc) Fixed legends when using multiple input files.
* (docs) More reference reformatting.

2.9.9.1

* (rapidtide) Properly set the "_nodefault" flag on "passes". Should resolve https://github.com/bbfrederick/rapidtide/issues/178.
* (rapidtide) Terminate despeckling if the number of voxels to despeckle is not changing.
* (rapidtide,ccorrica) Changed default correlation weighting to "phat".
* (ccorrica) Output filtered timecourses.
* (docs) More documentation enhancements by tsalo.
* (docs) Updated requirements.txt file to reflect recent documentation changes so readthedocs build would complete.
* (docs) Converted all references to bibtex.
* (package) Merged some dependabot PRs.

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