CCB Special Interest Group on Automated Pipeline Workflows for Neuroimaging Data Analysis
Overview
The SIG-FLOW group meets regularly to address challenges and report progress on the Design, Revisions, Validation and Dissemination of old and new Pipeline workflows.
Members
Meeting Data/Time/Place
- The SIG-FLOW group meeting is meeting Tue/Thu, 11:00AM in T-Room
- Minimum Distance Template (MDT), Atlasing
- Tensor Based Morphometry (TBM), Cal Tech
- Stats Tools Modules
- Datasets and Atlases
- Auto Tissue Volume Workflow (auto calculation of total WM GM ICV volumes)
- Global Shape Analysis (GSA)
- ShapeTools? Modules/Pipelines
- fMRI/FEAT
- Local Shape Analysis (LSA)
- Automated 56 ROI volume extraction workflow
- Direct Hippo Mapping (DHM, Yonggang) workflow
- Others
Progress & Status
Protocols for committing Pipeline Libraries and Workflows to production
The following 2 protocols should be followed to commit tools/libraries and pipeline workflows to production.
Committing Pipeline Workflows to core Pipeline server library
- IVO DINOV: Confirm that source code is in LONI SVN repo and validate application build.
- ALEN/SHRUTHI: Test the stand-alone application on known good datasets. Validate results.
- SYS ADMINS: Install application in /usr/local of cerebro-rcc and Cranium cluster.
- ALEN/SHRUTHI: Integrate the application into a Pipeline workflow. Test on development cluster and validate results.
- ALEN/SHRUTHI: Test on production cluster and validate results.
- ALEN/SHRUTHI:Deploy workflow on
* Development (Server:Cranium-Dev)
* Production(Server:Cranium-Prod)
* Try-Me (contact Amanda)
* Training (Server:Cranium-edu)
- Module/Workflow Wiki page (docs and usage).
- PIPELINE Group: Add workflow to Pipeline distribution.
LONI Grid Server Matrix
| Hostname | Alias | CPU/Slot Count | Status | Ownership |
| pipeline‐lsh1.loni.ucla.edu | try-me | 8 | production | sysadmin & pipeline |
| cerebro‐lsh1.loni.ucla.edu | pipeline-dev | 16 | development | pipeline |
| cerebro‐lsh2.loni.ucla.edu | cranium primary | 590 | production | sysadmin & pipeline |
| cerebro‐lsh3.loni.ucla.edu | cranium secondary | 590 | production | sysadmin & pipeline |
| cerebro‐lsh5.loni.ucla.edu | pipeline-qa | 192 | development/qa | pipeline |
| cerebro‐lsh6.loni.ucla.edu | pipeline-ext | 50 | production | sysadmin & pipeline |