| 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 |
| 3681cc3 | Timothy Brown | 11 August 2014, 20:41:37 UTC | Updated examples and README to assume gradient distortion correction will not be done. | 11 August 2014, 20:41:37 UTC |
| 2c17748 | Matt Glasser | 11 August 2014, 20:22:31 UTC | *Edit readme file FIX description | 11 August 2014, 20:22:31 UTC |
| b116e18 | Timothy Brown | 11 August 2014, 19:09:02 UTC | No longer need file that identifies gradient coefficient files as proprietary | 11 August 2014, 19:09:02 UTC |
| 25d6eaa | Timothy Brown | 11 August 2014, 18:54:37 UTC | Minor fix to README file reference to hcp_fix file | 11 August 2014, 18:54:37 UTC |
| 078ea6e | Timothy Brown | 11 August 2014, 18:52:55 UTC | Added reference to ICA FIX script to README | 11 August 2014, 18:52:55 UTC |
| f6dbdb8 | Timothy Brown | 11 August 2014, 18:13:16 UTC | Removed Diffusion Tractography from master branch (what will be released) | 11 August 2014, 18:13:16 UTC |
| 18a2264 | Timothy Brown | 11 August 2014, 16:12:56 UTC | Clarified dependency of Surface fMRI preprocessing on Volume fMRI preprocessing | 11 August 2014, 16:12:56 UTC |
| 93559b7 | Timothy Brown | 11 August 2014, 15:53:48 UTC | Updated README to reflect dependency of surface fMRI processing on volume fMRI processing | 11 August 2014, 15:53:48 UTC |
| 5b22bf2 | Timothy Brown | 11 August 2014, 15:45:23 UTC | Added logging of return value to run_eddy.sh script | 11 August 2014, 15:45:23 UTC |
| 84dc73e | Timothy Brown | 11 August 2014, 15:42:47 UTC | Merge branch 'master' of https://github.com/Washington-University/Pipelines | 11 August 2014, 15:42:47 UTC |
| ed63695 | Timothy Brown | 11 August 2014, 15:42:11 UTC | Fixed spacing in log message | 11 August 2014, 15:42:11 UTC |
| 8dfede2 | Matt Glasser | 11 August 2014, 03:50:04 UTC | *Edit comments on example batch scritps to make them more informative | 11 August 2014, 03:51:18 UTC |
| 5a560d8 | Timothy Brown | 08 August 2014, 22:00:42 UTC | Put links in for where sample data should be. | 08 August 2014, 22:00:42 UTC |
| 0f6a9d1 | Timothy Brown | 08 August 2014, 21:20:26 UTC | Updated link to FreeSurfer v5.3.0-HCP ftp site | 08 August 2014, 21:20:26 UTC |
| ca7f6af | Timothy Brown | 08 August 2014, 20:14:25 UTC | Created Version v3.3.2 | 08 August 2014, 20:14:25 UTC |
| cfc4f20 | Timothy Brown | 08 August 2014, 20:10:31 UTC | Added status echo statements to DiffusionPreprocessingBatch.sh | 08 August 2014, 20:10:31 UTC |
| c6f4624 | Timothy Brown | 08 August 2014, 20:03:17 UTC | Added more text about running Functional Preprocessing | 08 August 2014, 20:03:17 UTC |
| 3f533ee | Timothy Brown | 08 August 2014, 20:00:30 UTC | Added some status echo commands to GenericfMRIVolumeProcessingPipeline.sh | 08 August 2014, 20:00:30 UTC |
| 71d4ec8 | Timothy Brown | 08 August 2014, 19:59:42 UTC | Added RegName variable to GenericfMRISurfaceProcessingPipelineBatch.sh | 08 August 2014, 19:59:42 UTC |
| bfe9d90 | Timothy Brown | 08 August 2014, 19:58:50 UTC | Fixed specification of PosData and NegData in DiffusionPreprocessingBatch.sh | 08 August 2014, 19:58:50 UTC |
| 64a21d0 | Timothy Brown | 08 August 2014, 17:52:43 UTC | Updated references to HCP gradunwarp code to version 1.0.2 | 08 August 2014, 17:52:43 UTC |
| 78f6538 | Timothy Brown | 08 August 2014, 16:41:47 UTC | Updated PostFreeSurferPipelineBatch.sh and README to use FreeSurfer for surface alignment | 08 August 2014, 16:41:47 UTC |
| 972a274 | Timothy Brown | 08 August 2014, 16:26:57 UTC | Made PostFreeSurferPipelineBatch.sh executable | 08 August 2014, 16:26:57 UTC |
| 75f4a18 | Timothy Brown | 07 August 2014, 20:27:25 UTC | Updates to example scripts and README to prepare for release | 07 August 2014, 20:27:25 UTC |
| 330dae3 | Timothy Brown | 07 August 2014, 18:07:17 UTC | Standardizing Batch files | 07 August 2014, 18:07:17 UTC |
| 6656de3 | Timothy Brown | 06 August 2014, 17:51:14 UTC | Merge branch 'master' of https://github.com/Washington-University/Pipelines | 06 August 2014, 17:51:14 UTC |
| 531bcca | Timothy Brown | 06 August 2014, 17:51:06 UTC | Fixes to internal links in README | 06 August 2014, 17:51:06 UTC |
| 1572187 | Timothy Brown | 06 August 2014, 17:43:10 UTC | Added parts of README explaining what happens when job is submitted to OGE/SGE | 06 August 2014, 17:43:10 UTC |
| f2e4816 | Timothy Brown | 06 August 2014, 16:50:58 UTC | Continued improvements to README file | 06 August 2014, 16:50:58 UTC |
| 18c75e2 | Timothy Brown | 06 August 2014, 16:38:39 UTC | Added instructions for running PreFreeSurfer on example data | 06 August 2014, 16:38:39 UTC |
| c8f0259 | Timothy Brown | 06 August 2014, 16:32:56 UTC | Modifications to SetUpHCPPipeline.sh and creation of PreFreeSurferPipelineBatch.sh to work with example data | 06 August 2014, 16:32:56 UTC |
| 93dcf64 | Timothy Brown | 05 August 2014, 20:04:01 UTC | Updating README.md | 05 August 2014, 20:04:01 UTC |
| e52afe3 | Timothy Brown | 04 August 2014, 19:59:11 UTC | Updated license statements to reference project LICENSE file | 04 August 2014, 19:59:11 UTC |
| 6f1fb1c | Timothy Brown | 04 August 2014, 18:32:14 UTC | Corrected LICENSE file | 04 August 2014, 18:32:14 UTC |
| ebbd599 | Timothy Brown | 04 August 2014, 18:27:52 UTC | Separated license into LICENSE.md file | 04 August 2014, 18:27:52 UTC |
| af5923a | Timothy Brown | 04 August 2014, 17:20:45 UTC | Updated FSL, FreeSurfer, and grandunwarp required version numbers | 04 August 2014, 17:20:45 UTC |
| 80cb4cc | Timothy Brown | 04 August 2014, 14:42:52 UTC | Some README.md file improvements. Not complete yet though. | 04 August 2014, 14:42:52 UTC |
| 3769efb | Timothy Brown | 04 August 2014, 14:42:22 UTC | Make .gitignore ignore *.grad files to try to prevent proprietary files from being checked in to the repository. | 04 August 2014, 14:42:22 UTC |
