Fixing bugs in BioSim execution

Merge pull request #1221 from virtualcell/NonspatialHDF5BioSimDimensi…

…onFix

Nonspatial hdf5 bio sim dimension fix + prune function in vcutils

fix typo in path prefix env var

7.5.0.123

fix env var name in docker-compose.yml for pathPrefix

api prefixes /api/v0 and /api/v1

api prefix for legacy api server, vcell-api to /api/v0
api prefix for new api server, vcell-rest to /api/v1

allows path based routing of api requests during transition from legacy to new api server.

Fixes to how we handle BioSim output

Merge pull request #1217 from virtualcell/PublicationFixes

Fix remaining issues preventing / hindering publishing VCell models on BSTS

fix batch user ssh key permissions in Docker

set Userid in docker stack compose file to allow non-root Docker user to use ssh key.

Rerelease

Merge pull request #1211 from virtualcell/FurtherVcellWebRedaction

More removal

7.5.0.118.2: Merge pull request #1211 from virtualcell/FurtherVcellWebRedaction

More removal

Fixing spatial report organization

Merge pull request #1210 from virtualcell/RandomReportEntries

Changed how spatial sedml reports are constructed.

Fixes to unit system changes within model geometry

Merge pull request #1202 from virtualcell/FixingUnits

Fixed Issue where Geometry did not scale with Unit change to length

Fix HDF5 Issues on Server

Merge pull request #1198 from virtualcell/Hdf5ServerFix

Hdf5 server fix