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Hi Jon, I've added the "Fastest" performance option back in - would you be able to test it to see if it resolves your problems? You can use the same instructions I sent in my earlier email. Paul On Sat, 6 Aug 2022 at 17:55, Glasser, Matt <[log in to unmask]> wrote: > For what it’s worth, we run NoMachine as well and haven’t noticed any > issues with FSLeyes. For us, everything in NoMachine is run under > VirtualGL, so it uses hardware acceleration for rendering and that could be > an important difference for performance (we can’t even run Connectome > Workbench without it). > > > > Matt. > > > > *From: *FSL - FMRIB's Software Library <[log in to unmask]> on behalf of > paul mccarthy <[log in to unmask]> > *Reply-To: *FSL - FMRIB's Software Library <[log in to unmask]> > *Date: *Tuesday, August 2, 2022 at 12:33 PM > *To: *"[log in to unmask]" <[log in to unmask]> > *Subject: *Re: [FSL] Update to fsleyes 1.4.6 > > Hi Jon, > > > > It sounds like they have a different set up to yours. I'm intending to add > the "fastest" option back in, but it may take a couple of weeks - if you > don't mind, I'll ping you when I have something for you to test. > > > > Paul > > > > On Mon, 1 Aug 2022 at 16:13, Jon Brooks (PSY - Staff) < > [log in to unmask]> wrote: > > Hi Paul, > > > > Just wanted to add something else into the mix. > > > > I’ve tried connecting to another site using NoMachine – they are running > the venerable fsleyes 1.1.1, and with best appearance selected for > rendering mode, the system runs as if you were on console – instantly > responsive. I.e. much faster than the latest version with best performance > put back in. > > > > Not sure if this is helpful? Let me know if you want more information > about the setup or indeed if you want to see it in action? > > > > Cheers, Jon > > > > > > Dear Paul, > > > > > > Thanks for this. Seems better, but still not as fast as with previous > version 1.3.3(?) – the default as was distributed with fsl 6.0.5.1 as per > couple of months ago. > > > > > > Followed your instructions to download using git. > > > > > > I needed to “load” fsl in our normal way i.e. module load fsl > > > > Otherwise fslpython isn’t found. > > > > > > (base) [gnx20mmu@uwwbichead01 ~/fsleyes]$ cd fsleyes > > > > (base) [gnx20mmu@uwwbichead01 ~/fsleyes]$ export PYTHONPATH=$(pwd) > > > > (base) [gnx20mmu@uwwbichead01 ~/fsleyes]$ fslpython -m fsleyes -p 1 > > > > > > (40 seconds elapse before splash appears, fslpython showing ~7% CPU usage > during this time). > > > > > > /gpfs/home/gnx20mmu/fsleyes/fsleyes/colourmaps.py:572: UserWarning: Trying > to register the cmap 'pink' which already exists. > > > > mplcm.register_cmap(key, cmap, override_builtin=True) > > > > /gpfs/home/gnx20mmu/fsleyes/fsleyes/colourmaps.py:572: UserWarning: Trying > to register the cmap 'hot' which already exists. > > > > mplcm.register_cmap(key, cmap, override_builtin=True) > > > > /gpfs/home/gnx20mmu/fsleyes/fsleyes/colourmaps.py:572: UserWarning: Trying > to register the cmap 'cool' which already exists. > > > > mplcm.register_cmap(key, cmap, override_builtin=True) > > > > /gpfs/home/gnx20mmu/fsleyes/fsleyes/colourmaps.py:572: UserWarning: Trying > to register the cmap 'copper' which already exists. > > > > mplcm.register_cmap(key, cmap, override_builtin=True) > > > > /gpfs/home/gnx20mmu/fsleyes/fsleyes/colourmaps.py:572: UserWarning: Trying > to register the cmap 'hsv' which already exists. > > > > mplcm.register_cmap(key, cmap, override_builtin=True) > > > > > > (__main__.py:150232): Gtk-CRITICAL **: 21:09:22.638: gtk_window_resize: > assertion 'width > 0' failed > > > > /gpfs/software/ada/fsl/ > 6.0.5.1/fslpython/envs/fslpython/lib/python3.8/site-packages/xnat/__init__.py:27 > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2F6.0.5.1%2Ffslpython%2Fenvs%2Ffslpython%2Flib%2Fpython3.8%2Fsite-packages%2Fxnat%2F__init__.py%3A27&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=chPKSGPuLJum6cusTSB3O0UbZJnWgH%2BhQunMPOtH6%2Bw%3D&reserved=0>: > DeprecationWarning: the imp module is deprecated in favour of importlib; > see the module's documentation for alternative uses > > > > import imp > > > > /gpfs/software/ada/fsl/ > 6.0.5.1/fslpython/envs/fslpython/lib/python3.8/site-packages/notebook/utils.py:280 > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2F6.0.5.1%2Ffslpython%2Fenvs%2Ffslpython%2Flib%2Fpython3.8%2Fsite-packages%2Fnotebook%2Futils.py%3A280&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=oYoMbOxeVgmngDeBsHiz3K7UgxlQOL7GKSIJltKZ1QY%3D&reserved=0>: > DeprecationWarning: distutils Version classes are deprecated. Use > packaging.version instead. > > > > return LooseVersion(v) >= LooseVersion(check) > > > > > > (__main__.py:150232): Gdk-WARNING **: 21:10:33.640: gdkdrawable-x11.c:952 > drawable is not a pixmap or window > > > > > > Then fsleyes window appears and I’m able to poke around in the standard > brain with a (noticeable) 100ms lag between cursor click and screen update. > > > > > > Relevant?: > > > > I’m running through NoMachine connecting via VPN to server > > The server (CentOS) uses “module” to load fsl (set paths, envars) e.g. > $ module load fsl > > When I start fsleyes python (not fslpython) shows about 10% CPU usage > and the splash takes about 40 seconds to appear, and fsleyes is unusable – > the screen redraws are incredibly slow (2 seconds between each one). > > It’s perfectly possible to watch a youtube video remotely through > NoMachine connection – and glxgears runs smoothly i.e. I don’t think it’s > the connection or the server’s performance > > > > > > So it’s definitely better (x20), but still not great… and not as good as > before. > > > > > > Cheers, Jon > > > > > > > > Hi Jon, > > > > > > I have an experimental version of FSLeyes with the performance setting > added back in. Would you be able to test it on your system to see if it > improves performance? You should be able to use it without modifying your > existing FSL/FSLeyes installation by following these steps: > > > > > > # Clone the git repository, and check out the development branch: > > > > git clone https://git.fmrib.ox.ac.uk/paulmc/fsleyes.git > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgit.fmrib.ox.ac.uk%2Fpaulmc%2Ffsleyes.git&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=ROZUa95OSW%2BVns19LvXADs%2F6Aqv0j6m2HY%2BixxujaVo%3D&reserved=0> > > > > cd fsleyes > > > > git checkout mnt/revert-remove-performance > > > > > > # Use the PYTHONPATH variable to override the installed FSLeyes version > > > > export PYTHONPATH=$(pwd) > > > > > > # Run fsleyes through the fslpython interpreter, with low performance > enabled > > > > fslpython -m fsleyes -p 1 > > > > > > Paul > > > > > > On Thu, 7 Jul 2022 at 21:26, Jon Brooks (PSY - Staff) <[log in to unmask]> > wrote: > > > > Hi Paul, > > > > > > Thanks for getting back to me – I’m not sure what the issue is, but when > using fsleyes on our headnode (CentOS7) rendering performance in orthoview > is abysmal. We access the server via NoMachine Linux Terminal Server > edition (v6), and the server is using hardware acceleration. > > > > > > In the 1.3.x version we would change performance from Best Appearance to > (Fast or Fastest) and it was like night and day. On the former fsleyes > renders like a download from the 1980s over a dial-up modem, with Fastest > it’s like being sat in front of my mac, instantly responsive, with no > apparent loss of visual quality. > > > > > > So that was a very long winded way of saying: yes please, can we have the > option back 😉 > > > > > > Cheers, Jon > > > > > > -- > > > > Jon Brooks (PSY - Staff) > > > > > > Associate Professor & Head of MRI > > > > University of East Anglia Wellcome Wolfson Brain Imaging Centre (UWWBIC) > > > > School of Psychology, Room 01.56, Lawrence Stenhouse Building, Chancellors > Drive, > > > > Norwich Research Park, Norwich, NR4 7TJ, United Kingdom > > > > Tel: +44(0)1603 591396 > > > > Int: 1396 > > > > A picture containing silhouette Description automatically > generatedsignature_4163963870 > > > > > > UK 14th for Research Quality in Psychology, Psychiatry, and Neuroscience > > > > (Times Higher Education rankings for the Research Excellence Framework > 2021) > > > > World Top 200 (Times Higher Education World University Rankings 2022) > > UK Top 30 (The Times/Sunday Times 2022 and Complete University Guide 2022) > > UK Top 20 for research quality (Times Higher Education Rankings for the > Research Excellence Framework 2021) > > World Top 50 for research citations (Times Higher Education World > University Rankings 2022) > > World Top 50 (Times Higher Education Impact Rankings 2022) > > Athena SWAN Silver Award Holder (since 2019) in recognition of advancement > towards gender equality for all (Advance HE) > > > > > > > > From: Jon Brooks (PSY - Staff) <[log in to unmask]> > > Date: Wednesday, 6 July 2022 at 16:07 > > To: [log in to unmask] <[log in to unmask]> > > Cc: [log in to unmask] <[log in to unmask]> > > Subject: Update to fsleyes 1.4.6 > > > > Hi, > > > > > > We had been having some problems with slow rendering performance on > orthoview, then discovered the rendering performance settings (best > appearance, fast, fastest) – which solved it all…. until now. > > > > > > We just updated to the latest version (1.4.6) and the rendering > performance option under “view settings” (spanner icon) has gone. > > > > > > Any ideas where to start with this one? > > > > > > Cheers, > > > > > > Jon > > > > > > FYI > > > > 1. we’re running on a remote server using NoMachine, with hardware > acceleration turned on > > > > 2. glxgears runs fine > > > > 3. other info below: > > > > > > FSLeyes version: 1.4.6 > > > > FMRIB Centre, Oxford, UK > > > > Paul McCarthy > > > > [log in to unmask] > > > > FSL version: None > > > > FSL directory: /gpfs/software/ada/fsl/6.0.5.1 > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2F6.0.5.1%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=HdKB%2BXyiBBbO2bKU1t6W2s8PNvUueB2b%2BBVfsfo4pMo%3D&reserved=0> > > > > OpenGL version: 3.1 > > > > OpenGL compatibility: 2.1 > > > > OpenGL renderer: softpipe > > > > > > FSLeyes was developed at the FMRIB Centre, Nuffield Department of Clinical > Neurosciences, Oxford University, United Kingdom. > > > > > > FSLeyes is a Python application which leverages the following open-source > software libraries: > > > > > > - fsleyes-props [1.7.3] (https://git.fmrib.ox.ac.uk/fsl/fsleyes/props > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgit.fmrib.ox.ac.uk%2Ffsl%2Ffsleyes%2Fprops&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=NtLthZAYdIe9kWTIzx9VXvVNWwIELAbWpkbKz%2BMA4Rc%3D&reserved=0> > ) > > > > - fsleyes-widgets [0.12.3] (https://git.fmrib.ox.ac.uk/fsl/fsleyes/widgets > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgit.fmrib.ox.ac.uk%2Ffsl%2Ffsleyes%2Fwidgets&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=0Ye4ONzNKAmk3pvMe0oAK4lqRPHTwX2L%2FFZUNIoiAnM%3D&reserved=0> > ) > > > > - fslpy [3.10.0] (https://git.fmrib.ox.ac.uk/fsl/fslpy > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgit.fmrib.ox.ac.uk%2Ffsl%2Ffslpy&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=EARgVP%2Ba7L6%2FEE0p5FyOcdiAmmBBkRUH4YR5dZx6sfA%3D&reserved=0> > ) > > > > - indexed_gzip [1.6.13] (https://github.com/pauldmccarthy/indexed_gzip/ > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Fpauldmccarthy%2Findexed_gzip%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=MkVJlYPVfkC5fAFQtOSWk4KEzsLIeSIUb507oLniJEY%3D&reserved=0> > ) > > > > - IPython [8.4.0] (https://ipython.org/ > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fipython.org%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=bYZ2UmyRTJGroRD%2FzdDPhjh1lZ%2FLl2xqGpMYL9kK4vI%3D&reserved=0> > ) > > > > - jinja2 [3.1.2] (http://jinja.pocoo.org > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fjinja.pocoo.org%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=CWU8CHj9qd94pJm9450VDpdEBjliVnd07QEkqyAsRDc%3D&reserved=0> > ) > > > > - Jupyter notebook [6.4.12] (https://jupyter.org > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fjupyter.org%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=ERsTk6LNR30zmpz2yzVUAUtURmicykcJHDBMpEdRxB0%3D&reserved=0> > ) > > > > - matplotlib [3.5.2] (http://www.matplotlib.org > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.matplotlib.org%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=FcVcPr31PEzmAoTCdMW0ieJ3KM6RPABO5Lv6SkAujpU%3D&reserved=0> > ) > > > > - nibabel [4.0.1] (http://nipy.org/nibabel > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fnipy.org%2Fnibabel&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=%2Brt0KVn0boMdBYqGOm1E6ZtBG3IKhGOrWydgDOIKeps%3D&reserved=0> > ) > > > > - numpy [1.22.4] (http://www.numpy.org > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.numpy.org%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=CGohdNQ2ZfOP3H60%2FebCOZpTkdYHuPG%2FkS9zPxh%2FXFE%3D&reserved=0> > ) > > > > - pillow [9.2.0] (http://python-pillow.org/ > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fpython-pillow.org%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=ROa0iBOUhwwJG%2FowYlODGiSzx5aKYVH%2BBXgRt3vU9aY%3D&reserved=0> > ) > > > > - pyopengl [3.1.6] (http://pyopengl.sourceforge.net > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fpyopengl.sourceforge.net%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=wZTAme3JLq2RiradES71JITR%2BCtO%2FNwv3SYNUFBQb7s%3D&reserved=0> > ) > > > > - pyparsing [2.4.7] (http://pyparsing.wikispaces.com/ > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fpyparsing.wikispaces.com%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=z08m7C8ddRxrtcXjuzutenkZ2I4fDtwvYMSxf88Fe7o%3D&reserved=0> > ) > > > > - scipy [1.8.1] (http://www.scipy.org > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.scipy.org%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=m0cUO0AEZIogKn%2FI8oqvAy3nfRZi0NZs2nwcmWjKei8%3D&reserved=0> > ) > > > > - six [1.16.0] (https://pythonhosted.org/six/ > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpythonhosted.org%2Fsix%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=3BoV8dmwmEDEnpXRSZLj2M9Msnp9ZeOlbDVBvbuak4U%3D&reserved=0> > ) > > > > - trimesh [3.12.0] (https://github.com/mikedh/trimesh > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Fmikedh%2Ftrimesh&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=KYX2LP2ddQBxmsOGGxNv609WY1QGAghhJ3q%2F1LTc3yw%3D&reserved=0> > ) > > > > - wxpython [4.1.1] (http://www.wxpython.org > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.wxpython.org%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=%2Bkha0F%2FFQlRDGUmRNzzijocMFg0je9%2BGCyRP%2BfDl35M%3D&reserved=0> > ) > > > > - wxnatpy [0.4.0] (https://github.com/pauldmccarthy/wxnatpy/ > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Fpauldmccarthy%2Fwxnatpy%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793425598%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=iOcEwAtV5oEqaWi8B%2BhTfUStUuq672FGj%2FGtEcJ6Jk0%3D&reserved=0> > ) > > > > - xnatpy [0.4.2] (https://bitbucket.org/bigr_erasmusmc/xnatpy > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbitbucket.org%2Fbigr_erasmusmc%2Fxnatpy&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793581829%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=nUJfZbfUEjI%2F1yccuqN3kV1y54kr6xiY70Nx0H%2BOJQY%3D&reserved=0> > ) > > > > > > Cubic/spline interpolation routines used in FSLeyes are provided by Daniel > Ruijters and Philippe Thévenaz, described at > http://www.dannyruijters.nl/cubicinterpolation/ > <https://nam10.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.dannyruijters.nl%2Fcubicinterpolation%2F&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793581829%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=uBKc2mtXEVDTeJLV1asxHtb7GlBS5AhCrMFC0lHOzs4%3D&reserved=0> > . > > > > > > The GLSL parser is based on code by Nicolas P . Rougier, available at > https://github.com/rougier/glsl-parser > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Frougier%2Fglsl-parser&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793581829%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=J1XJ7MnmUE0bGpGdZimk%2F%2FRhhb0PYQvNbvr78NZYgCc%3D&reserved=0>, > and released under the BSD license. > > > > > > Some of the icons used in FSLeyes are derived from the Freeline icon set, > by Enes Dal, available at https://www.iconfinder.com/Enesdal > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.iconfinder.com%2FEnesdal&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793581829%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=f3wnLT59l5Qn7K75qSPcw0MgQHPm8JQ8u1haLapmirw%3D&reserved=0>, > and released under the Creative Commons (Attribution 3.0 Unported) license. > > > > > > DICOM to NIFTI conversion is performed with Chris Rorden's dcm2niix ( > https://github.com/rordenlab/dcm2niix > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2Frordenlab%2Fdcm2niix&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793581829%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=HKLdfty%2BEck5NTNQ0Nr3Szwm7lb7RgiQn%2FxnumyuNzw%3D&reserved=0> > ). > > > > > > The "brain_colours" colour maps were produced and provided by Cyril Pernet > > > > (https://doi.org/10.1111/ejn.14430 > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2F10.1111%2Fejn.14430&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793581829%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=S4elgZj48zYC4f%2FQYlDRudbmvLG1%2BwXqIDXMruaIY%2B0%3D&reserved=0> > ). > > > > > > FSLeyes is released under Version 2.0 of the Apache Software License. > Source code for FSLeyes is available at > https://git.fmrib.ox.ac.uk/fsl/fsleyes/fsleyes > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgit.fmrib.ox.ac.uk%2Ffsl%2Ffsleyes%2Ffsleyes&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793581829%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=3Xm%2FcV0CFiUG5AGCgRCxqWShreXd%2Flq%2F3IwS545bAgM%3D&reserved=0> > > > > > > Copyright 2016-2019 University of Oxford, Oxford, UK. > > > > > > -- > > > > Jon Brooks (PSY - Staff) > > > > > > Associate Professor & Head of MRI > > > > University of East Anglia Wellcome Wolfson Brain Imaging Centre (UWWBIC) > > > > School of Psychology, Room 01.56, Lawrence Stenhouse Building, Chancellors > Drive, > > > > Norwich Research Park, Norwich, NR4 7TJ, United Kingdom > > > > Tel: +44(0)1603 591396 > > > > Int: 1396 > > > > A picture containing silhouette Description automatically > generatedsignature_4163963870 > > > > > > UK 14th for Research Quality in Psychology, Psychiatry, and Neuroscience > > > > (Times Higher Education rankings for the Research Excellence Framework > 2021) > > > > World Top 200 (Times Higher Education World University Rankings 2022) > > UK Top 30 (The Times/Sunday Times 2022 and Complete University Guide 2022) > > UK Top 20 for research quality (Times Higher Education Rankings for the > Research Excellence Framework 2021) > > World Top 50 for research citations (Times Higher Education World > University Rankings 2022) > > World Top 50 (Times Higher Education Impact Rankings 2022) > > Athena SWAN Silver Award Holder (since 2019) in recognition of advancement > towards gender equality for all (Advance HE) > > > > > > > > > ------------------------------ > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=FSL&A=1 > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.jiscmail.ac.uk%2Fcgi-bin%2FWA-JISC.exe%3FSUBED1%3DFSL%26A%3D1&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793581829%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=HvS%2B4Ii8H0iuU5rAxgVrOpWVEq9kMttMHYWBsQ2v7Zk%3D&reserved=0> > > > ------------------------------ > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=FSL&A=1 > <https://nam10.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.jiscmail.ac.uk%2Fcgi-bin%2FWA-JISC.exe%3FSUBED1%3DFSL%26A%3D1&data=05%7C01%7Cglasserm%40wustl.edu%7Ce7352b2dbce14091a6ae08da7472a6a0%7C4ccca3b571cd4e6d974b4d9beb96c6d6%7C0%7C0%7C637950334793581829%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C2000%7C%7C%7C&sdata=HvS%2B4Ii8H0iuU5rAxgVrOpWVEq9kMttMHYWBsQ2v7Zk%3D&reserved=0> > > > ------------------------------ > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you > are not the intended recipient, be advised that any unauthorized use, > disclosure, copying or the taking of any action in reliance on the contents > of this information is strictly prohibited. If you have received this email > in error, please immediately notify the sender via telephone or return mail. > > ------------------------------ > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=FSL&A=1 > ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=FSL&A=1 This message was issued to members of www.jiscmail.ac.uk/FSL, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/