Hoffman2:Software Tools: Difference between revisions
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| | | 0.2.3 || 2021.03.04 || Current | ||
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Revision as of 23:30, 8 March 2021
There is a CCN usergroup on Hoffman2 which is maintained for groups doing Neuroimaging work at UCLA. Tools like FSL, FreeSurfer, AFNI and Nibabel are maintained for this group separate from normal Hoffman2 programs. In order to take advantage of these tools, you need to load the modules into the interactive mode or listed in your batch mode scripts.
module load appname/version
Below is a list of the available software tools. We will do our best to update it as changes are made.
AFNI
| Version | Install Date | Notes |
|---|---|---|
| 20.1.00 | New | |
| 19.0.15 | 2019.02.20 | |
| 17.2.07 | 2017.02.07 | Default |
| 16.3.1 | 2016.11.20 | |
| 2011.12.21.1014 | 2012.03.19 |
ANTS
| Version | Install Date | Notes |
|---|---|---|
| ants-2.3.1 | New | |
| ants-2.2.0 | 2019.03.25 | |
| ants-2.1.0-redhat | 2015.01.23 | Default |
ASHS
| Version | Install Date | Notes |
|---|---|---|
| 20180720 | 2018.07.20 | New |
| 2017-02 | 2017.06.08 | |
| Rev-103 | 2016.02.24 | Default |
BrainSuite
| Version Number | Install Date | Notes |
|---|---|---|
| 19a | 2019.02.19 | Default |
| 15c | 2016.02.18 | No longer supported |
C3D
Caret
| Version | Install Date | Notes |
|---|---|---|
| 5.65 (2012.01.27) | 2013.07.15 | Default, not folded into the main profile |
Chronux
| Version | Install Date | Notes |
|---|---|---|
| 2.10 | 2013.02.26 | Current |
CONN
| Version | Install Date | Notes |
|---|---|---|
| 19.b | New | |
| 18.b | ||
| 17.f | Default |
dcm2nii
| Version | Install Date | Notes |
|---|---|---|
| 2013.06.06 | 2014.03.06 | |
| 2011.11.11 | circa 2011 | Current |
EEGLAB
| Version | Install Date | Notes |
|---|---|---|
| 13.1.1b | 2014.01.29 | |
| 12.0.2.5b | 2013.11.14 | |
| 11.0.5.4b | 2013.11.14 | |
| 12.0.0.0b | 2012.12.10 | |
| 11.0.0.0b | 2012.02.21 | |
| 10.2.5.8b | 2012.02.21 |
FMRIprep
| Version Number | Install Date | Notes |
|---|---|---|
| 20.1.1 | New | |
| 1.4.0 | 2019.01.11 | Default |
| 1.3.2 | 2019.01.11 |
FreeSurfer
| Version | Install Date | Notes |
|---|---|---|
| 6.0.0 | 2017.01.18 | New |
| 5.3.0-HCP | 2013.05.13 | |
| 5.3.0 | 2013.05.13 | Default |
| 5.2.0 | 2013.03.27 | |
| 5.1.0 | 2011.11.14 | |
| 5.0.0 | circa 2010 | |
| 4.4.0 | circa 2009 | |
| 4.0.5 | circa 2008 |
FSL
| Version Number | Install Date | Notes |
|---|---|---|
| 6.0.1 | 2019.03.01 | New |
| 6.0.0 | 2018.10.23 | |
| 5.0.11 | 2018.03.19 | |
| 5.0.10 | 2017.04.24 | * Known Issue |
| 5.0.9 | 2015.10.02 | Default |
| 5.0.8 | 2014.12.03 | |
| 5.0.7 | 2013.10.17 | |
| 5.0.6 | 2013.12.18 | (2013.12.18-2014.10.10) |
| 4.1.9 | 2011.12.01 | |
| 4.0.4 | circa 2008 |
Known issue: 5.0.10 fsleyes crash on x2go
HCP Benchwork
- Note: module name: hcp
| Version | Install Date | Notes |
|---|---|---|
| 1.3.2 | 2019.05.22 | New |
| 1.2.3 | 2018.02.13 | |
| 1.1.1 | 2016.02.18 | Default |
| 1.0 | ||
| 0.84 |
ICA-AROMA
ITKGray
| Version Number | Install Date | Notes |
|---|---|---|
| 080803 | 2009.11.19 | Default |
| 080128 | 2009.11.13 |
MANGO
NDATools
| Version Number | Install Date | Notes |
|---|---|---|
| 0.2.3 | 2021.03.04 | Current |
SPM
| Version | Last Patch Applied | Last Checked Date | Notes |
|---|---|---|---|
| SPM12-standalone | Current | ||
| SPM12 | |||
| SPM8 | 5236 | 2014.01 | |
| SPM5 | Unknown | N/A | No longer supported |
TrackVis/Diffusion Toolkit
| Tool | Version Number | Last Checked Date | Notes |
|---|---|---|---|
| TrackVis | 0.5.2.2 | 2014.03.06 | |
| Diffusion Toolkit | 0.6.2.2 | 204.03.06 |
WEKA
| Version Number | Install Date | Notes |
|---|---|---|
| 3.8.1 | ||
| 3.7.10 | 2014.03.03 | |
| 3.6.5 | circa 2011.08 |