Thanks Time. I'll install fsl 5.0.9 and the patched version.
How do the pipelines choose between fsl versions? Or is it up to the user to prepare their path appropriately based on what pipeline they'll be running? -M > From: "Timothy B. Brown" <[email protected]> > > Hi Michael, > > Unfortunately, the situation gets a little "messy". The prerequisites > for v3.19.0 are (for the most part) the same as those for v3.4.0. > However, due to a change that was introduced in FSL at version 5.0.7 > that is not backward compatible, there are some specific pipelines that > require different versions of FSL. > > For the most part, FSL 5.0.6 is required to get results that are > compatible with the HCP results. But for the diffusion preprocessing > pipeline, you will need FSL version 5.0.9. In fact, we actually used a > version of the eddy program that is to be included in 5.0.10 (which I do > not believe is officially released just yet.) See the message here > (https://www.jiscmail.ac.uk/cgi-bin/webadmin?A2=fsl;5ade7210.1611) for > some information on how to create a "patched" version of 5.0.9 that > contains the 5.0.10 version of the eddy program. > > For the ReApplyFix pipeline, you will also need version 5.0.9. (Since it > does not use the eddy program, it does not matter if this is the > actually released v5.0.9 or one that is "patched" to include the 5.0.10 > version of eddy.) Since the DeDriftAndResample pipeline invokes the > ReApplyFix pipeline, it requires FSL version 5.0.9. > > I have tried to include specific version checks and warnings in any > pipelines that specifically require v5.0.9 or above. > > I am in the process of trying to get or verify that all the pipelines in > entire product can use the same version of FSL (v5.0.9+), but I had to > maintain some of them in the FSL v5.0.6 state to make sure all our HCP > data was processed the same way. > > Wish I had a simpler answer for you, > > Tim > > On 03/01/2017 02:40 PM, Michael Stauffer wrote: > > Hi, > > > > I'm installing v3.19 of the HCP Pipelines for a user on my system. Are > > the pre-reqs the same for 3.4.0 that I already have installed? The > > documentation points to the 3.4.0 release notes. > > > > Thanks > _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
