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7. An 'Image Crop' window pops up. An image should be cropped to include all material and the inner edge of the end-cap. RGB data will exclude data outside of the Crop area. The green box is the IMS estimation of the crop area. Click and drag the green lines to adjust the cropped area area at the top, bottom, and sides of the image. Tools in this window include:
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10. The 'Image Crop' window will go away and the 'Sample Information' window will appear again.
Uploading Data
Data Structure
Three Two files are uploaded to LORE via MegaUploadaTron (MUT): a cropped JPEG file, full length TIFF file, and a RGB file. Files are written to C: > DATA > IN. MUT looks in this folder, uploads the files, and moves succesfully uploaded files to C: > DATA. Both files must be present or no file will not upload:
- .roi file
- .RGB file
.roi File: Contains callouts to the uncropped TIFF , uncropped JPEG, and cropped JPEg images. The images are linked files in LORE as Images > Core Closeup (LSIMG).
.RGB File: Contains the red, green, and blue values calculated for each offset. The information is in LORE under Physical Properties > RGB Channels (RGB).
How to Upload Data
- Open up MUT (FIG XX). Use LIMS Applications password to login.
- Set 'Project' at the bottom of the screen to either the current expedition or '999' if performing tests.
- Files with checkmarks in the right column will upload. A green arrow in the COLUMN XX indicates it is in process of upload. A purple question mark indicates the file is not recognized by MUT. This could be due to an incorrect sample name or only one file being in the 'IN' Folder.
- Check 'Automatic Upload'. At the refresh interval the files will upload to LORE.
MUT Configuration
In MUT the 'active analyses' should be set to Linescan Image, Processes RGB channels, and Whole-round Linescan. If one of this analyses is not set MUT will not be able to upload all files.
Maintenance
Instrument Preparation
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