| 7cc9133 | Timothy B. Brown | 20 April 2015, 19:38:04 UTC | Created Version v3.6.0-RCc | 20 April 2015, 19:38:04 UTC |
| 28c6bfe | Timothy B. Brown | 14 April 2015, 19:02:46 UTC | Modified TaskfMRIAnalysisBatch.sh example script for v2.0 of Task fMRI Analysis | 14 April 2015, 19:02:46 UTC |
| fcd3950 | Timothy B. Brown | 14 April 2015, 18:44:18 UTC | After testing detection of FSL version, included actual invocations of V1.0 or V2.0 of Task fMRI Analysis scripts. | 14 April 2015, 18:44:18 UTC |
| 6b8b725 | Timothy Brown | 14 April 2015, 18:41:28 UTC | Fixed echo in function that checks version of FSL for Task fMRI Analysis | 14 April 2015, 18:41:28 UTC |
| bda0793 | Timothy B. Brown | 14 April 2015, 18:32:42 UTC | Split Task fMRI Analysis into a version for FSL 5.0.6 and older (V1.0) and a version for FSL 5.0.7 and newer (V2.0). V2.0 not only works with newer FSL, but also has new features. | 14 April 2015, 18:32:42 UTC |
| 3f161e7 | Timothy B. Brown | 14 April 2015, 17:10:01 UTC | Backed out changes to TaskfMRILevel1.sh for FSL v 5.0.7+ | 14 April 2015, 17:10:01 UTC |
| 3bc9d41 | Timothy B. Brown | 10 April 2015, 22:15:59 UTC | TaskfMRILevel1.sh now should detect FSL version and behave appropriately | 10 April 2015, 22:15:59 UTC |
| d498f85 | Timothy B. Brown | 10 April 2015, 21:52:09 UTC | Fix demo script to determine fsl version from fslmaths | 10 April 2015, 21:52:09 UTC |
| 8b9a31a | Timothy Brown | 10 April 2015, 21:47:03 UTC | Added demo script for checking version of FSL based on fslmaths | 10 April 2015, 21:47:03 UTC |
| 3e4e229 | Timothy Brown | 02 April 2015, 21:19:13 UTC | Fixes to DiffPreprocPipeline_Eddy.sh --sep_offs_move and --rms switches. | 02 April 2015, 21:19:13 UTC |
| 08374cb | Timothy Brown | 02 April 2015, 20:34:09 UTC | Updated version.txt for v3.6.0-RCa tag/release | 02 April 2015, 20:34:09 UTC |
| 9f6189a | Timothy Brown | 02 April 2015, 19:40:01 UTC | Remove executable permission from text, configuration, and image files | 02 April 2015, 19:40:01 UTC |
| b4ee2c0 | Timothy B. Brown | 02 April 2015, 19:00:05 UTC | Merge pull request #8 from Washington-University/7THCP Merge 7T HCP changes along with some Prisma 3T changes into master | 02 April 2015, 19:00:05 UTC |
| c6d2f2e | Timothy Brown | 02 April 2015, 18:37:11 UTC | Added some utility batch scripts | 02 April 2015, 18:37:11 UTC |
| 3310d28 | Timothy Brown | 02 April 2015, 18:34:59 UTC | Add new options for newer version of eddy.gpu binary | 02 April 2015, 18:34:59 UTC |
| a0a4cb8 | Timothy Brown | 31 March 2015, 21:31:58 UTC | Fixed phase encoding directions for consistency +/- == RL/LR == PA/AP | 31 March 2015, 21:31:58 UTC |
| 787158a | Timothy Brown | 16 March 2015, 19:57:23 UTC | minor formatting changes | 16 March 2015, 19:57:23 UTC |
| b586a21 | Timothy Brown | 16 March 2015, 19:49:59 UTC | minor formatting changes | 16 March 2015, 19:49:59 UTC |
| 4e44088 | Timothy Brown | 13 March 2015, 22:13:10 UTC | Added dwiname commmand line attribute to Diffusion Preprocessing scripts | 13 March 2015, 22:13:10 UTC |
| 3dfc5ba | Timothy Brown | 02 March 2015, 16:07:00 UTC | Added logging of environment and some tool versions to PreFreeSurfer and FreeSurfer scripts | 02 March 2015, 16:07:00 UTC |
| 220bd83 | Timothy Brown | 09 February 2015, 21:08:21 UTC | Making b0maxbval a command line argument with a default value in DiffPreprocPipeline_PreEddy.sh and writing example scripts | 09 February 2015, 21:08:21 UTC |
| c8208c9 | Timothy Brown | 09 February 2015, 20:43:00 UTC | Making b0maxbval a command line argument with a default value in DiffPreprocPipeline_PreEddy.sh and writing example scripts | 09 February 2015, 20:43:00 UTC |
| fea84f4 | Timothy Brown | 05 February 2015, 18:05:26 UTC | Changes for 7T testing and 3T size checking | 05 February 2015, 18:05:26 UTC |
| c0fe5a4 | Timothy Brown | 05 February 2015, 17:39:14 UTC | Added scripts to process 3T_Size_Checking data | 05 February 2015, 17:39:14 UTC |
| 26bb4c3 | Timothy Brown | 05 February 2015, 17:16:26 UTC | Working on 7T versions of Pipelines | 05 February 2015, 17:16:26 UTC |
| 8e3b14c | Timothy Brown | 03 February 2015, 18:12:07 UTC | Added example script DiffusionPreprocessing7TBatch.sh | 03 February 2015, 18:12:07 UTC |
| 99ff385 | Timothy Brown | 17 January 2015, 17:56:53 UTC | Fixed debugging output to SubcorticalProcessing.sh script | 17 January 2015, 17:56:53 UTC |
| 9f1ecac | Timothy Brown | 15 January 2015, 19:30:18 UTC | Added debugging output to SubcorticalProcessing.sh script | 15 January 2015, 19:30:18 UTC |
| 8b7c0d3 | Timothy Brown | 13 January 2015, 17:43:29 UTC | Fixed FinalfMRIResolution in GenericfMRISurfaceProcessingPipeline7TBatch.sh to match value in GenericfMRIVolumeProcessingPipeline7TBatch.sh | 13 January 2015, 17:43:29 UTC |
| 29653c4 | Timothy Brown | 12 January 2015, 16:52:13 UTC | Updates to SetUpHCPPipeline.sh | 12 January 2015, 16:52:13 UTC |
| 2860400 | Timothy Brown | 08 January 2015, 18:54:00 UTC | Added example script for running surface processing for 7T data | 08 January 2015, 18:54:00 UTC |
| 02d8821 | Timothy Brown | 19 December 2014, 17:30:01 UTC | Some Bug Fixes and Documentation Updates | 19 December 2014, 17:30:01 UTC |
| b81cd31 | Timothy Brown | 05 December 2014, 18:22:44 UTC | Changes for debugging 7T | 05 December 2014, 18:22:44 UTC |
| 9f8cfc1 | Timothy Brown | 25 November 2014, 17:46:12 UTC | Added degrees of freedom option to DiffPreprocPipeline.sh and passed value on to DiffPreprocPipeline_PostEddy.sh | 25 November 2014, 17:46:12 UTC |
| 3e5dc23 | Timothy Brown | 25 November 2014, 17:00:24 UTC | Added degrees of freedom option to Diffusion Post Eddy script | 25 November 2014, 17:00:24 UTC |
| 5de057b | Timothy Brown | 25 November 2014, 15:47:20 UTC | * Removed --fsl-dof option from calls to bbregister in DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased.sh * Moved the version of epi_reg_dof which is a modification of the FSL v5.0.7 version of epi_reg to the global/scripts directory * Removed all versions of epi_reg_dof from the fMRIVolume/scripts directory * Updated DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased.sh to invoke epi_reg_dof in the global/scripts directory | 25 November 2014, 15:47:20 UTC |
| 7bfeff1 | Timothy Brown | 24 November 2014, 17:15:48 UTC | Changes to support 12 degrees of freedom image registration | 24 November 2014, 17:15:48 UTC |
| 20b0295 | Timothy Brown | 19 November 2014, 21:08:48 UTC | Removed VersionHistory.md which was replaced by a page on the project wiki for version changes prior to first public release | 19 November 2014, 21:08:48 UTC |
| c08c02c | Timothy B. Brown | 18 November 2014, 21:44:09 UTC | Merge pull request #5 from Washington-University/general-electric-field-map-support Integrated code to support General Electric Gradient Echo field map | 18 November 2014, 21:44:09 UTC |
| c07bc57 | Timothy Brown | 18 November 2014, 21:30:02 UTC | Integrated code to support General Electric Gradient Echo field map | 18 November 2014, 21:30:02 UTC |
| 7b021b3 | Timothy Brown | 04 November 2014, 22:30:37 UTC | Updated version.txt file for tagging version v3.5.0 | 04 November 2014, 22:30:37 UTC |
| a0194a0 | Timothy B. Brown | 04 November 2014, 22:14:57 UTC | Merge pull request #4 from Washington-University/diffusion-qc-additions Diffusion qc additions | 04 November 2014, 22:14:57 UTC |
| f735e25 | Timothy B. Brown | 24 October 2014, 16:40:24 UTC | Merge pull request #3 from Washington-University/external-doc-improvements External doc improvements | 24 October 2014, 16:40:24 UTC |
| 3506b22 | Timothy Brown | 21 October 2014, 15:08:17 UTC | Fixed bug in changes to run_eddy.sh for getting outlier statistics | 21 October 2014, 15:08:17 UTC |
| dc3e501 | Timothy Brown | 20 October 2014, 18:06:15 UTC | Version v3.4.1RCc - Release candidate with eddy outlier statistics collection option, eddy outlier replacement option, and echoing of exact command used for running eddy. | 20 October 2014, 18:06:15 UTC |
| c89a3d8 | Timothy Brown | 18 October 2014, 14:19:19 UTC | v3.4.1RCb - fix -wss switch to --wss switch in call to eddy binary in DiffPreprocPipeline_Eddy.sh | 18 October 2014, 14:19:19 UTC |
| cb1e120 | Timothy Brown | 18 October 2014, 14:13:18 UTC | v3.4.1RCb - fix -wss switch to --wss switch in call to eddy binary in DiffPreprocPipeline_Eddy.sh | 18 October 2014, 14:13:18 UTC |
| 1a99e0a | Timothy Brown | 14 October 2014, 20:15:50 UTC | Added replace outliers option for eddy.gpu | 14 October 2014, 20:15:50 UTC |
| dd79847 | Timothy Brown | 14 October 2014, 19:48:35 UTC | Added detailed outlier statistics option for eddy.gpu | 14 October 2014, 19:48:35 UTC |
| 0af25b8 | Timothy Brown | 11 September 2014, 19:40:52 UTC | Created minimalist README file and moved release notes, installation, and usage document to the wiki | 11 September 2014, 19:40:52 UTC |
| 98ac18f | Timothy Brown | 11 September 2014, 17:14:14 UTC | Moved FAQ to the project specific wiki on GitHub | 11 September 2014, 17:14:14 UTC |
| 1fa7b18 | Timothy Brown | 11 September 2014, 15:46:32 UTC | Changes to FAQ: Connectom vs. Connectome, Encourage using GDC, Examining robustness of pipelines with 4-6 year olds. | 11 September 2014, 15:46:32 UTC |
| b8ea1db | Timothy Brown | 10 September 2014, 21:31:42 UTC | Created Version v3.4.0 | 10 September 2014, 21:31:42 UTC |
| f40ce6c | Timothy Brown | 10 September 2014, 21:29:01 UTC | Added a little information about FreeSurfer version 5.3.0-HCP to README | 10 September 2014, 21:29:01 UTC |
| 75f5cdf | Timothy Brown | 10 September 2014, 21:27:42 UTC | Added a little information about FreeSurfer version 5.3.0-HCP to README | 10 September 2014, 21:27:42 UTC |
| 8e13b12 | Timothy Brown | 10 September 2014, 20:57:12 UTC | Added link to hcp-users mailing list to README | 10 September 2014, 20:57:12 UTC |
| 59106fc | Timothy Brown | 10 September 2014, 18:17:27 UTC | Corrected statement of version of OS used for 500 subject release. | 10 September 2014, 18:17:27 UTC |
| 61d6cc0 | Timothy Brown | 10 September 2014, 17:17:34 UTC | Updated README release notes | 10 September 2014, 17:17:34 UTC |
| 84da156 | Timothy Brown | 10 September 2014, 17:08:46 UTC | Updated README release notes | 10 September 2014, 17:08:46 UTC |
| b3d2bc5 | Timothy Brown | 10 September 2014, 17:01:37 UTC | Further README file improvements in the Release notes section | 10 September 2014, 17:01:37 UTC |
| 96e3b2a | Timothy Brown | 10 September 2014, 16:46:14 UTC | Fixed header in README file | 10 September 2014, 16:46:14 UTC |
| 633576a | Timothy Brown | 10 September 2014, 16:44:45 UTC | Removed wb_command file and associated caret7 directory from repository. Updated README. | 10 September 2014, 16:44:45 UTC |
| 4d9996b | Timothy Brown | 09 September 2014, 18:56:15 UTC | Updated version number requirements for prerequisite software | 09 September 2014, 18:56:15 UTC |
| af7fdad | Timothy Brown | 09 September 2014, 18:41:18 UTC | Updated version number requirements for prerequisite software | 09 September 2014, 18:41:18 UTC |
| 8741b71 | Timothy Brown | 26 August 2014, 21:00:45 UTC | Having get_batch_options.shlib as a separate library of functions doesn't seem to be working under Ubuntu | 26 August 2014, 21:00:45 UTC |
| 08df6f4 | Timothy Brown | 26 August 2014, 18:50:03 UTC | TaskfMRILevel1.sh now checks for FSL version 5.0.6 specifically. | 26 August 2014, 18:50:03 UTC |
| bfaf3fc | Timothy Brown | 26 August 2014, 18:34:23 UTC | Changed requirements for TaskfMRIAnalysis.sh to FSL version 5.0.6 not FSL version 5.0.6 or later | 26 August 2014, 18:34:23 UTC |
| 9507693 | Timothy Brown | 26 August 2014, 18:33:05 UTC | Added explanation of Connectome Workbench prerequisite and setting of CARET7DIR variable in setup scripts | 26 August 2014, 18:33:05 UTC |
| f2be1fc | Timothy Brown | 26 August 2014, 18:31:11 UTC | Removed references to CARET5 from SetUpHCPPipeline.sh | 26 August 2014, 18:31:11 UTC |
| f1ee5af | Timothy Brown | 26 August 2014, 15:58:05 UTC | Fixed sourcing of get_batch_options.shlib function library | 26 August 2014, 15:58:05 UTC |
| 003afb5 | Timothy Brown | 22 August 2014, 19:02:19 UTC | Made example batch scripts accept command line arguments for study folder and subject list. They still default to using the values specified inside the scripts if the command line options are not specified. This makes automated launching of these example batch scripts easier. | 22 August 2014, 19:02:19 UTC |
| 444e20b | Timothy Brown | 21 August 2014, 19:41:40 UTC | Removed debugging changes to TAskfMRILevel2.sh | 21 August 2014, 19:41:40 UTC |
| 6d72db8 | Timothy Brown | 21 August 2014, 17:32:42 UTC | Fixed bug in use of volume_name vs volume_file, left_name vs left_file, and right_name vs right_file variables. Bug introduced by me a few days ago. | 21 August 2014, 17:32:42 UTC |
| 3aadc91 | Timothy Brown | 19 August 2014, 18:05:04 UTC | clarification of files used int TaskfMRILeve1.sh when doing temporal bandpass filtering | 19 August 2014, 18:05:04 UTC |
| 6ef42d0 | Timothy B. Brown | 18 August 2014, 02:09:07 UTC | Fixed typo in README file. Took out debugging statements from TaskfMRILevel1.sh | 18 August 2014, 02:09:07 UTC |
| 492f8fc | Timothy Brown | 15 August 2014, 18:08:38 UTC | Fixed spelling error | 15 August 2014, 18:08:38 UTC |
| d9f73bc | Timothy Brown | 15 August 2014, 17:54:05 UTC | debugging changes for TaskfMRIAnalysis scripts | 15 August 2014, 17:54:05 UTC |
| 112aa02 | Timothy Brown | 15 August 2014, 14:42:55 UTC | Merge branch 'master' of https://github.com/Washington-University/Pipelines | 15 August 2014, 14:42:55 UTC |
| a2e9505 | Timothy Brown | 15 August 2014, 14:42:22 UTC | Added debugging messages to TaskfMRILevel1.sh | 15 August 2014, 14:42:22 UTC |
| 7231dc0 | Timothy Brown | 14 August 2014, 22:39:21 UTC | Corrected path the level 2 task analysis template fsf file | 14 August 2014, 22:39:21 UTC |
| 3cb459b | Timothy Brown | 14 August 2014, 21:12:35 UTC | Minor fixes to README | 14 August 2014, 21:12:35 UTC |
| 7d6c74e | Timothy Brown | 14 August 2014, 21:08:34 UTC | Improvements to README | 14 August 2014, 21:08:34 UTC |
| 0a70bcc | Timothy Brown | 14 August 2014, 20:55:49 UTC | Added script to copy EV files, updated template FSF files, updated README, added debugging output to TaskfMRILevel2.sh | 14 August 2014, 20:55:49 UTC |
| 1593d53 | Timothy Brown | 14 August 2014, 17:33:38 UTC | Updated wall time information for Task Analysis | 14 August 2014, 17:33:38 UTC |
| e3f7b62 | Timothy Brown | 14 August 2014, 17:32:21 UTC | Modified template .fsf files to find the EV files as distributed | 14 August 2014, 17:32:21 UTC |
| 4cb56fe | Timothy Brown | 14 August 2014, 16:22:45 UTC | Fixed subject verb tense agreement in README | 14 August 2014, 16:22:45 UTC |
| 21bdc6d | Timothy Brown | 14 August 2014, 16:19:29 UTC | Added Examples/FsfGeneration | 14 August 2014, 16:19:29 UTC |
| f657297 | Matt Glasser | 13 August 2014, 06:08:09 UTC | *Default no additiona smoothing to task fMRI pipeline | 13 August 2014, 06:08:09 UTC |
| f83598a | Timothy Brown | 12 August 2014, 21:22:24 UTC | Fixed unmatched quotes in GenericfMRISurfaceProcessingPipelineBatch.sh | 12 August 2014, 21:22:24 UTC |
| fcc7179 | Timothy Brown | 12 August 2014, 18:45:04 UTC | Fixed formatting in Out of Memory Hint | 12 August 2014, 18:45:04 UTC |
| 3cf6a42 | Timothy Brown | 12 August 2014, 18:42:37 UTC | Fixed a sentence about the task fMRI analysis pipeline | 12 August 2014, 18:42:37 UTC |
| a583452 | Timothy Brown | 12 August 2014, 18:40:55 UTC | Added resource limit information about the task fMRI analysis pipeline | 12 August 2014, 18:40:55 UTC |
| bbe8d1c | Timothy Brown | 12 August 2014, 18:08:50 UTC | One more Level 3 task analysis file to remove - still left in level3-task-frmi-analysis branch | 12 August 2014, 18:08:50 UTC |
| 82c6416 | Timothy Brown | 12 August 2014, 18:04:11 UTC | Moved files associated with level 3 task analysis to level3-task-fmri-analysis branch | 12 August 2014, 18:04:11 UTC |
| 01f04c7 | Timothy Brown | 12 August 2014, 17:53:29 UTC | remove files and references to no longer supported readout distortion correction method | 12 August 2014, 17:53:29 UTC |
| 1c60899 | Timothy Brown | 12 August 2014, 17:46:40 UTC | Renamed TaskfMRIAnalysis.bat to TaskfMRIAnalysisBatch.sh, modified it slightly for consistency with other example batch scripts, and updated README to include instructions for running Task fMRI Analysis. | 12 August 2014, 17:46:40 UTC |
| e45b353 | Timothy Brown | 12 August 2014, 17:22:58 UTC | Added resource requirements and out of memory detection hints to README | 12 August 2014, 17:22:58 UTC |
| d603aca | Timothy Brown | 12 August 2014, 14:43:22 UTC | Fixed error detection for run of bet in run_topup.sh | 12 August 2014, 14:43:22 UTC |
| 8c6c6f9 | Timothy Brown | 11 August 2014, 20:52:42 UTC | Added debugging output to run_topup.sh script | 11 August 2014, 20:52:42 UTC |
| ce2975c | Timothy Brown | 11 August 2014, 20:45:59 UTC | Merged changes | 11 August 2014, 20:45:59 UTC |
