2021.09_2 Artifact Release
RELEASE DATE: 29 SEPTEMBER 2021 EST
Bug Fixes
DE-2616 Sotax DT50 - update parser to work with the RAW file from IoT model IE Pro
- IDS
- Slug: same
- Version: same
- Changes: N/A
- Task Script
- Slug: common/sotax-dt50-raw-to-ids
- Version: v3.0.1
- Changes:
- Update to support files collected by Tetra IoT Agent with DT50 driver v1.0.3
- Protocol
- Slug: common/sotax-dt50-raw-to-ids
- Version: v2.1.1
- Changes:
- Update to use task script common/sotax-dt50-raw-to-ids v3.0.1
DE-2589 Charles River Endosafe Nexus - investigate why the parser failed
- IDS
- Slug: common/endotoxin-software-charles-river-endoscan-v
- Version: v3.0.0
- Changes:
- Add
nullable_boolean
object to definitions - Update several fields to
nullable_number
,nullable_string
, andnullable_boolean
- Add
@idsConventionVersion
to schema base requirements as a string constant “v1.0.0” - Add
serial_number
andlast_updated_timestamp
tosystems[*].software
object - Add
firmware
object tosystems
object - Add
id
,name
,firmware
tosystems
object - Add
id
andtype
tousers
object - Remove
serial_number
andsoftware
fromsystems
requirements - Remove
related_files
object and move thename
field to theruns[*].source_file
- Remove
enum
restriction onresults[*].optical_density
,results[*].reaction_time
,results[*].endotoxin
,results[*].processing.reaction_time
, andresults[*].processing.endotoxin
fields - Update RAW to IDS mapping table to reflect changes to IDS
- Move contents of
example-files
intosupporting-files
as the contents are manually annotated examples of sample data
- Add
- Task Script
- Slug: common/charles-river-endoscan-v-util
- Version: v2.0.0
- Changes:
- Update to use IDS version v3.0.0
- Generalize casting of data from CSV to appropriate types for IDS with new
cast_or_default
function - Add function to remove non-number characters from numbers to be cast to floats and check for multiple decimals and hyphens, and that what remains is a valid number string (Examples. 1.2.0 is not valid, but 2.3 is; .1-2 and -1-2 are invalid, but -5.123 is)
- Add
id
andtype
toids["users"]
object - Remove logic for
ids["related_files"]
object and move filename toruns[*).source_name
- Improve boolean parsing so only strings cast to lowercase equal to "true" and "1" parse to
True
- Update unit tests to accommodate IDS changes
- Reorder construction of output dictionary parts to mimic order of IDS
- Protocol
- Slug: common/charles-river-endosafe-nexus-raw-to-ids
- Version: v2.3.0
- Changes:
- Update to use task script common/charles-river-endoscan-v-util v2.0.0
DE-2567 Bruker Sierra SPR32 - parser errors
- IDS
- Slug: same
- Version: same
- Changes: N/A
- Task Script
- Slug: common/bruker-sierra-spr32-util
- Version: v2.2.1
- Changes:
- Allow un-mapped units to be parsed as-is
- Allow injection to run without
Rack
information - Capture all injections in a Cycle
- Protocol
- Slug: common/bruker-sierra-spr32-util
- Version: v2.2.1
- Changes:
- Update to use task script common/bruker-sierra-spr32-util v2.2.1
PIPE-381 Waters Empower - Update task script base memory
- IDS
- Slug: same
- Version: same
- Changes: N/A
- Task Script
- Slug: same
- Version: same
- Changes: N/A
- Protocol
- Slug: common/empower-raw-to-ids
- Version: v3.7.1
- Changes:
- Update empower-raw-to-ids step to start with 4GB base memory instead of 500MB
Enhancements (New Features and Functionality)
DE-2558 Sartorius Octet RED96 - create Raw to IDS Parser
- IDS
- Slug: common/plate-reader-sartorius-octet-analysis-studio
- Version: v1.0.0
- Changes: no change. Previously released
- Task Script
- Slug: common/sartorius-octet-analysis-studio-raw-to-ids
- Version: v1.0.0
- Changes:
- First release
- Protocol
- Slug: common/sartorius-octet-analysis-studio-raw-to-ids
- Version: v1.0.0
- Changes:
- First release
Zeiss Microscope - prototype IDS and parser
DE-2445 Improve Zeiss .czi parser to extract all images instead of just a thumbnail DE-2557 Add file pointer links to images for common OME microscopy IDS- IDS
- Slug: common/microscope-zeiss
- Version: v0.2.0
- Changes:
- Forked from
ome-confocal-imaging-metadata
to capture CZI-specific image tiling - Added
related_files
to store pointers to image tiles in the datalake
- Forked from
- Task Script
- Slug: common/zeiss-microscope-raw-to-ids
- Version: v0.2.0
- Changes:
- Add functionality for generating image tiles as PNGs from a CZI image
- Update to use IDS
microscope-zeiss
v0.2.0
which includesrelated_files
for pointing to the generated images - Add these pipeline configurations related to tile extraction:
- Default tile size
- Metadata keys to look for tile size on the input file (takes precedence over defaults if present)
- Tile filename format, which can depend on the CZI image indices and the tile metadata
- A boolean of whether or not to extract all files
- Protocol
- Slug: common/zeiss-microscope-raw-to-ids
- Version: v0.2.0
- Changes:
- Update to use task script common/zeiss-microscope-raw-to-ids v0.2.0
Updated 10 months ago