Dose set not found for MATLAB R2016a and CERR 5.1 18-Nov-2015

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Daniel Bridges

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Jun 21, 2016, 3:45:31 AM6/21/16

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Warning: Dose set to be displayed was not found...Defaulting to the first dose set.

> In getDoseSet (line 47)

In sliceCallBack (line 548)

In sliceCallBack (line 1555)

How do I resolve this error message? I have seen discussion here from 2012 and 2015, but have not seen its solution.

I am using MATLAB R2016a with CERR Version 5.1 18-Nov-2015.

I open CERR via 'CERR' command after adding all subfolders via 'Set Path' in the Home tab. I have in one folder, together with a MATLAB file generated from dicomrt2matlab,

1 RT Dose file, 128 RT Image files, 1 RT Plan file, and 1 RT Structure Set file.

It is this folder I select for 'DICOM Import'. Here is troubling output from the MATLAB main console; I've omitted portions that seem normal:

CERR>> Scanning DICOM directory

C:\Users\[user name]\OneDrive\Documents\My Research\MATLAB\0 Shift Structure Accumulate Dose\patientdata\2013-06__Studies\all-in-one

java.io.IOException

at sun.awt.image.GifImageDecoder.readHeader(Unknown Source)

at sun.awt.image.GifImageDecoder.produceImage(Unknown Source)

at sun.awt.image.InputStreamImageSource.doFetch(Unknown Source)

at sun.awt.image.ImageFetcher.fetchloop(Unknown Source)

at sun.awt.image.ImageFetcher.run(Unknown Source)

Reading header ...

CERR>> DICOM Import has no methods defined for import into the planC{indexS.header}.sponsorID field, leaving empty.

CERR>> DICOM Import has no methods defined for import into the planC{indexS.header}.protocolID field, leaving empty.

CERR>> DICOM Import has no methods defined for import into the planC{indexS.header}.subjectID field, leaving empty.

CERR>> DICOM Import has no methods defined for import into the planC{indexS.header}.submissionID field, leaving empty.

CERR>> DICOM Import has no methods defined for import into the planC{indexS.header}.timeSaved field, leaving empty.

CERR>> DICOM Import has no methods defined for import into the planC{indexS.header}.lastSavedInVer field, leaving empty.

CERR>> DICOM Import has no methods defined for import into the planC{indexS.header}.CERRImportVersion field, leaving empty.

CERR>> DICOM Import has no methods defined for import into the planC{indexS.header}.anonymizedID field, leaving empty.

[…]

CERR>> Saving patient1-secondtry.mat...

CERR>> Saved patient1-secondtry.mat. Ready. (21-Jun-2016 16:14:50)

Warning: Objects of org/dcm4che2/data/BasicDicomObject class exist - not clearing java

> In javaclasspath>local_javapath (line 190)

In javaclasspath (line 119)

In javaaddpath (line 71)

In init_ML_DICOM (line 76)

In sliceCallBack (line 107)

In CERR (line 126)

[…]

CERR>> Loading patient1-secondtry.mat…

ans =

Columns 1 through 5

[1x1 struct] [1x0 struct] [1x1 struct] [1x20 struct] [1x1 struct]

Columns 6 through 10

[1x1 struct] [1x1 struct] [1x0 struct] [1x1 struct] [1x6 struct]

Columns 11 through 15

[1x0 struct] [1x1 struct] [1x0 struct] [1x0 struct] [0x0 struct]

Columns 16 through 20

[1x0 struct] [1x0 struct] [1x0 struct] [1x1 struct] [1x0 struct]

Columns 21 through 23

[1x0 struct] [1x1 struct] [1x1 struct]

Warning: Dose set to be displayed was not found...Defaulting to the first dose set.

> In getDoseSet (line 47)

In sliceCallBack (line 548)

In sliceCallBack (line 1555)

CERR>> Loaded patient1-secondtry.mat. Ready.

ap...@mskcc.org

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Jun 21, 2016, 7:43:44 AM6/21/16

to cerr-...@googlegroups.com

Hi Daniel,

These messages won't affect the data import or any of CERR's functionality.

1. The dose message: the default dose to be displayed can be set via CERROptions.m. In tbe absence of the default dose, CERR displays the first in your plan. That's what the message says.

2. The java awt related messages are related to Matlab graphics. They won't affect the data import.

3. The javaclasspath message is displayed because CERR tries to add the dcm4che libraries to path. Since you have these on your path already, a warning is issued.

-Aditya

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