Task #8148 (closed)
Opened 7 years ago
Closed 7 years ago
ImageInfo NO <SA>
| Reported by: | wmoore | Owned by: | wmoore |
|---|---|---|---|
| Priority: | minor | Milestone: | OMERO-4.4 |
| Component: | Bio-Formats | Version: | n.a. |
| Keywords: | n.a. | Cc: | |
| Resources: | n.a. | Referenced By: | n.a. |
| References: | n.a. | Remaining Time: | n.a. |
| Sprint: | n.a. |
Description
Using
$ java -Xmx512m loci.formats.tools.ImageInfo -nopix -omexml-only /User
to generate ome.xml produces many (E.g. 11000) Structured Annotations. This is a pain when trying to work with the rest of the OME.xml since the file is hundreds of times bigger than it needs to be. I have been removing all <SA> blocks manually, but it would be nice to have this option on the command line above.
E.g.
<XMLAnnotation ID="Annotation:11856">
<Value>
<OriginalMetadata xmlns="openmicroscopy.org/OriginalMetadata">
<Key>image 01 - XYCh-10x HardwareSetting|LDM_Block_Sequential|ATLConfocalSettingDefinition|Aotf|LaserLineSetting|AOBSIntensityLowDev 5</Key>
<Value>-1</Value>
</OriginalMetadata>
</Value>
</XMLAnnotation>
Change History (2)
comment:1 Changed 7 years ago by mlinkert
- Owner changed from mlinkert-x to wmoore
comment:2 Changed 7 years ago by wmoore
- Resolution set to fixed
- Status changed from new to closed
Working fine:
for the record - E.g.
$ java -Xmx512m loci.formats.tools.ImageInfo -nopix -omexml-only -no-sas -xmlspaces 4 /Users/will/Documents/biology-data/Test-Import-Images/Leica\ LEI/brian/tropo/tropo.lei
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Should be sorted with this commit: https://github.com/melissalinkert/bioformats/commit/eeb5720f67fb3d29cebbf0a91a6603ce60d3b9ca
Just add the '-no-sas' option, and the StructuredAnnotations should disappear; passing back to you, Will, for verification.