Recurring Meeting of Cleveland Clinic - Stanford University
Date: October 3, 2017
Time: 1:00 PM EST
Means: Conference Call
Attendees:
- Ahmet Erdemir (Cleveland Clinic)
- Rici Morrill (Cleveland Clinic)
- Joy Ku (Stanford University)
- Tod Hing (Stanford University)
Agenda:
This is a freeform meeting to discuss branching of the data management and query interface.
Immediate Action Items:
- Cleveland Clinic
- Send Scientific Data special issue announcement on data infrastructure.
- Work with Stanford University team to launch a static version of in vivo data with DOI.
- Stanford University
- Work with Cleveland Clinic team to launch a static version of in vivo data with DOI.
- Provide a separate data management system for in vitro data as a short-term solution.
Notes:
- Ahmet started the meeting by describing upcoming activities using the data management system.
- The group is working on a manuscript on in vivo ultrasound data. A static version of the data with a digital object identifier (DOI) needs to be disseminated.
- The group has also collected in vitro ultrasound data. This data set has some additional data types. The team intends to disseminate the in vitro data as a separate package.
- Ahmet is also interested in using the data management system and dissemination strategies for the Open Knee(s) project.
- Joy responded Ahmet about the possibilities to address potential issues that may raise during these activities. The participants discussed and decided upon strategies.
- To support data dissemination as part of a publication, a static version of the folder structure can be created and assigned a DOI. The data querying system can work on this as well. Initially, Ahmet was wondering about download file(s) to put in the downloads section of the project site with DOI. Yet, the group agreed that this may not be a cumbersome approach and Joy noted that providing the data as a static folder structure is possible.
- Joy had previously e-mailed Ahmet and Rici strategies to host in vivo and in vitro data.
- Two separate systems (one for in vivo and one for in vitro data) can be run. This is easy to implement. Yet, if user databases need to be shared between systems, some development will be necessary. A web page can be created to point to both systems. Ahmet noted that in the short-term this solution will work. He recognizes the user needing to create account for both systems separately. Nonetheless, the data will be disseminated until ported on a separate more user friendly system.
The Stanford University team has been working on incorporating the data management system to project architecture of SimTk. When completed, this will allow management of different datasets under a single project (currently set to three but can be expanded). More work needs to be done to make this system operational. The participants considered this as a long-term solution. The previous solution can be ported to SimTk once this feature becomes available.
Joy also mentioned the possibility to update the current data management system (launched for MULTiS) to incorporate support for multiple studies. Significant effort will be needed to implement this. Ahmet noted that this would be distraction and he would be happy if the team implements the short-term solution first (see above) and for the long-term invest in the upgrade of SimTk.
- Ahmet mentioned additional relevant news.
Ahmet has an interest to showcase the data management system to his institute members for potential internal use. He asked if the source code is available. Joy noted that the source code is in GitHub; it may need to be cleaned up for others.
Ahmet also mentioned a recently funded project on reproducibility analysis of knee joint modeling. He intends to utilize SimTk infrastructure to coordinate the project and accumulate model components, simulation results, etc. He will likely have future discussions with Joy in this regard.
- Rici and Ahmet mentioned that Scientific Data had an announcement for a special issue on data infrastructures. They thought that the data management system would be good candidate for such an issue or a collection. Rici will send the announcement to Joy.