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This particular option, `--collapse-linear-transforms-to-fixed-image-header`, has been [nonfunctional since December 2012](https://github.com/stnava/ANTs/blame/3b906d86a1b455714983083989417003425cd43c/Examples/antsRegistration.cxx#L76) but is still passed by the nipype interface.\r\n\r\nAs a result, with a fresh-from-source ANTs build, all nipype.interface.ants.Registration calls now fail with the message:\r\n```\r\nStandard output:\r\nERROR:  Invalid flag provided collapse-linear-transforms-to-fixed-image-header\r\nStandard error:\r\nERROR:  Invalid command line flags found! Aborting execution.\r\nReturn code: 1\r\n```\r\n\r\nThere is no provision to turn off this flag; the interface always passes the default of 0 (False). 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