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Hi jMRUI team,
I have the following Problem by loading 31P (Siemens magnetom) regarding MRSI: Whatever I choose by “filling order” (whether “default” or “custom” with “load from files”) jMRUI doesn’t care about the voxel order and put the highest signal in the middel. What should I do? Is it only possible to solve the problem with the matlab code? The problem is I don’t have matlab license for downloading the code.
best regards
Ali GordjinejadAli Gordjinejad
Research Centre JuelichDear Mojdeh,
Great. Fortunately also my problem seems to be solved. I transfer the data again as dicom (but in the way I wrote last time) to jMRUI and tried to open it directly (as you did) with MRSI. And surprise,…. obviously it works now. Although I have to check whether the voxel are really on the right places, but ot looks very trustfull. Maybe it will also work with rda. as you did. I have to try it next time.
Best regards
AliAli Gordjinejad
Research Centre JuelichHi Mojdeh,
We have a 3Tesla Trio Siemens Scanner and we have also trouble loading the CSI files with jMRUI. Did you save your files in the following way?:
In the Patient Brwoser go to -> “Applications”, -> “Dicom tools”, -> “Export Mr Spectroscopy”. The syngo software will save your data as dicom files on your (U) hard disk. Otherwise you will have trouble because the software will not be able to save the spectroscopy data.
You can go then afterwards within your Windows Explorer to: My computer, -> Med_System(U:). The files are available there and you can save it on your USB or….. On the jMRUI you can go to MRSI and try to open the file with the option: opens as-> Siemens DICOM Import. It should at least be able to read your file. But we have the problem that it is mixing the voxel order in a wrong way.Ali Gordjinejad
Research Centre JuelichDear Jana,
Thank you for your efforts. In my case I choose just one slice that means it is a 2D measurement. The CSI sequense is the standard Siemens one. To my knowledge there also not the option like parallel aquisition and (maybe there are and I am not aware about it)….you can just choose an 8x8x8 Matrix oder 16x16x16…and you can only choose further Parameter like TR,TE, average….not more. For me, just in the case to know how jmrui can read the file (or which Format, doesn’t matter which one) in a proper way it will be helpful. According to you it is right now just rda. and dcm. but unfortunatly also dcm. makes trouble. Maybe it helps if I would know how to read .rda file
best regards
AliAli Gordjinejad
Research Centre JuelichDear Jana,
I did what you told and it still doesn’t work. I have send the files to your e-mail adress since I didn’t where I have to upload the file on the jmrui web. If that is fine can you maybe just confirm me quickly if you got the mail? Thanks.
best regards
AliAli Gordjinejad
Research Centre JuelichThank you Jana for your help;
Actually, I have also tried as you suggested. But it doesn’t work also. I measured 31P spectroscopy (CSI) at a 3 T Trio scanner from Siemens. I also tried everykind of saving the files like: -> export spectroscopy, offline,….when I opened the file (8×8 matrix) I just got noise. Interesting is that: when I open the file not in MRSI but in “1D/Time Series” I get the signals (it contain also the desired 31P pics (64 pics)…). But instead of 64 I get 511 signals.The rest is just noise.
best regards
AliAli Gordjinejad
Research Centre JuelichThank you very much Jana,
It works. But the same problem occurs like when I am opening the file as Dicom:
It mixes all signals in the wrong voxel order.I am wondering since “Tarquin” is reading the files in the right order. Do you know maybe why this happens?best regards
AliAli Gordjinejad
Research Centre Juelich
