Pitzer

System Downtime June 30, 2021

A downtime for all OSC HPC systems is scheduled from 7 a.m. to 9 p.m., Wednesday, June 30, 2021. The downtime will affect the Pitzer and Owens Clusters, web portals, state-wide licenses, and HPC file servers. Login services will not be available during this time. Client portal (my.osc.edu) will be accessible. In preparation for the downtime, jobs that cannot be completed before 7 a.m., June 30, 2021 will not start. Jobs that are not started on clusters will remain until after the downtime and then will be queued to start once the system is returned to production status.

Neuropointillist

Neuropointillist is an in-development R package which defines functions to help scientists to run voxel-wise models using R neuroimaging data.

Availability and Restrictions

Versions

The following versions are available on OSC clusters:

xcpEngine

The XCP imaging pipeline (XCP system) is a free, open-source software package for processing of multimodal neuroimages. The XCP system uses a modular design to deploy analytic routines from leading MRI analysis platforms, including FSL, AFNI, and ANTs.

Availability and Restrictions

Versions

xcpEngine is available on Pitzer cluster. These are the versions currently available:

Problems with GPFS filesystem

We are experiencing some problems with GPFS filesystems this morning (Thursday, June 10). OnDemand is not working. It may also cause unexpected job failures. We are working hard to fix this issue, and will provide more updates once we know more. See this page: https://www.osc.edu/resources/technical_support/known_issues/problems_with_gpfs_filesystem_and_ondemand_is_not_working

Connectome

Connectome is an open-source visualization and discovery tool used to explore data generated by the Human Connectome Project. The distribution includes wb_view, a GUI-based visualization platform, and wb_command, a command-line program for performing a variety of algorithmic tasks using volume, surface, and grayordinate data.

Availability and Restrictions

Versions

The following versions are available on OSC clusters:

DSI Studio

DSI Studio is a tractography software tool that maps brain connections and correlates findings with neuropsychological disorders. It is a collective implementation of several diffusion MRI methods, including diffusion tensor imaging (DTI), generalized q-sampling imaging (GQI), q-space diffeomorphic reconstruction (QSDR), diffusion MRI connectometry, and generalized deterministic fiber tracking.

MRIQC

MRIQC is a program that provides automatic prediction of quality and visual reporting of MRI scans.

Availability and Restrictions

Versions

The following versions are available on OSC clusters:

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