QIICR/dcmqi

Condition failed: Not a directory in ... tid1500writer

ForgottenOneNyx opened this issue · 3 comments

ForgottenOneNyx commented

Hello, thank you for the package. Its really good. I do have one error though. I am using docker to run tid1500writer , and I obtain this error:

dcmqi repository URL: git@github.com:QIICR/dcmqi.git revision: 3efde87 tag: latest-1-g3efde87
Total measurement groups: 2
Adding to compositeContext: 8794971_FLAIR_lesion.dcm
Condition failed: Not a directory in ../../apps/sr/tid1500writer.cxx:68
terminate called after throwing an instance of 'int'
/dcmqi/docker_entry.sh: line 3:     6 Aborted                 $1 "${@:2}"

The command I used to get this error is the following:

docker run -v <HOST_DIR>:/tmp qiicr/dcmqi tid1500writer --inputImageLibraryDirectory /tmp/DICOM/ --inputCompositeContextDirectory /tmp/8794971_FLAIR_lesion.dcm --outputDICOM /tmp/DCM_SR.dcm --inputMetadata /tmp/8794971-sr-tid1500.json

As you can see my DICOM images lie in tmp/DICOM; the rest reside in /tmp; and I would like to output my structured report into a file name DCM_SR.dcm.

What do you think could be the issue?

ForgottenOneNyx commented

I have also tried to use the binary package with the command line converters provided in the documentation, this link in particular, as I am using MAC.

And I obtain a similar error

dcmqi repository URL: https://github.com/QIICR/dcmqi.git revision: 3efde87 tag: latest-1-g3efde87
Total measurement groups: 2
Adding to compositeContext: 8794971_FLAIR_lesion.dcm
Condition failed: Not a directory in /Users/travis/build/QIICR/dcmqi/apps/sr/tid1500writer.cxx:68
libc++abi.dylib: terminating with uncaught exception of type int
Abort trap: 6

The command I used to get this error is the following:

/Users/rsaluja/<location_to_binary>/dcmqi-1.2.2-mac-20200602-3efde87/bin/tid1500writer --inputImageLibraryDirectory <HOST_DIR>/DICOM/ --inputCompositeContextDirectory <HOST_DIR>/8794971_FLAIR_lesion.dcm --outputDICOM <HOST_DIR>/DCM_SR.dcm --inputMetadata <HOST_DIR>/8794971-sr-tid1500.json

<HOST_DIR> remains the same in the first comment and the second.

fedorov commented

The argument to --inputCompositeContextDirectory should be a directory, but it appears that in your case it is a file.

ForgottenOneNyx commented

@fedorov It has started working for both. Thanks for the swift reply.

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