search

biocompute-objects / BCO_Documentation

Repository for documentation to support the IEEE 2791-2020 standard. Please see our home page for communications/publications:
http://biocomputeobject.org/
BSD 3-Clause "New" or "Revised" License
16 stars 12 forks source link

platform: What are possible values? #28

Closed stain closed 5 years ago

stain commented 6 years ago

platform is defined as:

The multi-value reference to a particular deployment of an existing platform where this BCO can be reproduced. A platform can be a bioinformatic platform such as Galaxy or HIVE or it can be a software package such as CASAVA or apps that includes multiple algorithms and software.

"platform": "HIVE"

1) The example is not actually multi-value

2) Where do the values for platform come from? This seems to be free-text, so are we OK with variable values like "Galaxy", "UseGalaxy" and "Galaxy Platform"?

HadleyKing commented 6 years ago

platform is defined as:

The multi-value reference to a particular deployment of an existing platform where this BCO can be reproduced. A platform can be a bioinformatic platform such as Galaxy or HIVE or it can be a software package such as CASAVA or apps that includes multiple algorithms and software.

"platform": "HIVE"
  • [x] The example is not actually multi-value
  • [x] Where do the values for platform come from? This seems to be free-text, so are we OK with variable values like "Galaxy", "UseGalaxy" and "Galaxy Platform"?
LibrarPotter commented 5 years ago

If the platform information is necessary for retrieving full value from the BCO, a limited vocabulary for communicating the platform information would be valuable; however, I don't know how this list would be populated or maintained. Does such a list already exist?

HadleyKing commented 5 years ago

platform is defined as:

The multi-value reference to a particular deployment of an existing platform where this BCO can be reproduced. A platform can be a bioinformatic platform such as Galaxy or HIVE or it can be a software package such as CASAVA or apps that includes multiple algorithms and software.

"platform": "HIVE"
  • [x] The example is not actually multi-value
  • [x] Where do the values for platform come from? This seems to be free-text, so are we OK with variable values like "Galaxy", "UseGalaxy" and "Galaxy Platform"?

As part of #50 at the BioCompute Spec Hack-a-thon this was discussed. Given the difficulty of maintaining a comprehensive list of platforms it does not make sense to have this be a pre-defined value, meaning it has to be free text. Having a free text value that is not evaluated in the execution_domain does not make sense either. So it was decided to move this field to the description_domain and define it as informative and free text.