Andrey Fedorov
Andrey Fedorov
https://github.com/acil-bwh/ChestImagingPlatform/blob/develop/Resources/ChestConventions.xml
As pointed out by @cpinter, there appear to be entries present in the current version of this file https://github.com/Slicer/Slicer/blob/master/Base/Logic/Resources/ColorFiles/GenericAnatomyColors.txt, but not present in the segmentation context: https://github.com/QIICR/dcmqi/blob/master/doc/segContexts/SegmentationCategoryTypeModifier-SlicerGeneralAnatomy.json. Specific example: 3dSlicer...
See https://beta.mybinder.org/ 
Currently, this is done via the command line for the DICOM file list or directory. DICOM file list length can easily hit the Windows limit of 8k characters, and copying...
As an example, current `derivation` in the TID1500 schema would be replaced by `CODE_DCM_Derivation`. These are defined in [dcmsr/include/dcmtk/dcmsr/codes](http://git.dcmtk.org/?p=dcmtk.git;a=tree;f=dcmsr/include/dcmtk/dcmsr/codes;h=b48f5739a572d3ccc4e26bc227973deb21b5d096;hb=HEAD).
Currently, lack of mapping will abort the conversion process. It would be more user friendly not to require that all labels are mapped, and instead just process those that are...
As noted by @cpinter in https://github.com/QIICR/QuantitativeReporting/issues/167#issuecomment-316052746, terminology files in Slicer can get out of sync with the dcmqi versions. We can probably remedy this by adding few CI tests to:...
Example from David: ``` % dcsrdump FromEmel_20150506/jjvector4276015677.84977662.6.74.6217627.81381.667482524.159327.4255.136_extract.dcm : CONTAINER: (126000,DCM,"Imaging Measurement Report") [SEPARATE] (DCMR,1500) >HAS CONCEPT MOD: CODE: (121049,DCM,"Language of Content Item and Descendants") = (eng,RFC3066,"English") >>HAS CONCEPT MOD: CODE:...
@jcfr as discussed in #247, flags set at cmake configure time for the top-level project are not propagated into dcmqi target. This looks like a bug to me.
Reproducible with the current "latest" pre-release and (seems like) any input SEG. The conversion process completes ok, but the error is printed out. ``` $ ~/Downloads/dcmqi-1.0.5-mac-20170512-749c4d6/bin/segimage2itkimage --inputDICOM ~/github/dcmqi/data/segmentations/liver.dcm --outputDirectory ....