Some viscodes are not handled by ADNI-to-BIDS converter

[Adam-Ismaili-92]

Bug Description
When the ADNI-to-BIDS conversion is launched on ADNI data from the new IDA LONI interface (since October 2024), it fails because certain viscodes (nv, sc, scmri) are not supported by the converter.

It is important from them to be supported as part of the ADNI-to-BIDS converter upgrade.

To Reproduce
Steps to reproduce the behavior:

1. Download a subset of ADNI containing files with associated viscode "nv", "sc" or "scmri" in the clinical data, or the whole dataset, from the new IDA LONI interface.
2. Convert the set of data using the current converter with the following command : clinica convert adni-to-bids DATASET_DIRECTORY CLINICAL_DATA_DIRECTORY BIDS_DIRECTORY
3. After some conversion time, see the printed error.

Expected behavior
An error as the one shown below should be encountered :
ValueError: The viscode nv is not correctly formatted. Expected a session identifier of the form 'MXXX', or a baseline identifier among {'bl', 'm0'}.

Software Info

• OS: Linux
• Clinica version: 0.9.4
• Python version: 3.11.13

Additional context
Resolving this issue could involve modifying the function _viscode_to_session from /clinica/clinica/converters/_utils.py.

[xupin262]

Hi,

ADNI doesn't provide MPRAGEMETA.csv (MRIQUALITY.csv 和 MAYOADIRL_MRI_IMAGEQC_12_08_15.csv) any more after October 2024. Can you happened to download those file share it? I appreciate it.

Best,
Pin Xu

[Adam-Ismaili-92]

Hi,

ADNI doesn't provide MPRAGEMETA.csv (MRIQUALITY.csv 和 MAYOADIRL_MRI_IMAGEQC_12_08_15.csv) any more after October 2024. Can you happened to download those file share it? I appreciate it.

Best, Pin Xu

Hello Pin Xu,

Clinica has indeed been experiencing an issue with the processing of ADNI clinical data since October 2024.

I can however share with you a workaround.

But beforehand, please make sure to report this kind of issues on the Google Sheet used for Clinica support (https://groups.google.com/g/clinica-user), so that they can be handled more efficiently.

Best regards,

Adam ISMAILI

[xupin262]

Hi Adam, Thank you for your prompt response and for offering to share the clinical data from before October 2024. I have already reported the issue on the Clinica support Google Sheet as you suggested. I would greatly appreciate it if you could share the data files you mentioned (MPRAGEMETA.csv, MRIQUALITY.csv, and MAYOADIRL_MRI_IMAGEQC_12_08_15.csv) from before October 2024. This would be immensely helpful for my ongoing research. Additionally, if it is not too much trouble, could you also provide the following files if you happen to have them? I would be extremely grateful: - ADASSCORES.csv - ADNI_DXSUM_PDXCONV.csv - ADNI_NEUROPATH_MRI_04_12_18.csv Thank you once again for your assistance. I look forward to your reply. Best regards, Pin Xu 彼岸花开 ***@***.***  

…

------------------ 原始邮件 ------------------ 发件人: "aramis-lab/clinica" ***@***.***>; 发送时间: 2025年8月18日(星期一) 晚上6:18 ***@***.***>; ***@***.******@***.***>; 主题: Re: [aramis-lab/clinica] Some viscodes are not handled by ADNI-to-BIDS converter (Issue #1533) Adam-Ismaili-92 left a comment (aramis-lab/clinica#1533) Hi, ADNI doesn't provide MPRAGEMETA.csv (MRIQUALITY.csv 和 MAYOADIRL_MRI_IMAGEQC_12_08_15.csv) any more after October 2024. Can you happened to download those file share it? I appreciate it. Best, Pin Xu Hello Pin Xu, Clinica has indeed been experiencing an issue with the processing of ADNI clinical data since October 2024. I can however share with you a workaround. But beforehand, please make sure to report this kind of issues on the Google Sheet used for Clinica support (https://groups.google.com/g/clinica-user), so that they can be handled more efficiently. Best regards, Adam ISMAILI — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you commented.Message ID: ***@***.***>

[Adam-Ismaili-92]

Hi Adam,

Thank you for your prompt response and for offering to share the clinical data from before October 2024. I have already reported the issue on the Clinica support Google Sheet as you suggested.

I would greatly appreciate it if you could share the data files you mentioned (MPRAGEMETA.csv, MRIQUALITY.csv, and MAYOADIRL_MRI_IMAGEQC_12_08_15.csv) from before October 2024. This would be immensely helpful for my ongoing research.

Additionally, if it is not too much trouble, could you also provide the following files if you happen to have them? I would be extremely grateful:

• ADASSCORES.csv
• ADNI_DXSUM_PDXCONV.csv
• ADNI_NEUROPATH_MRI_04_12_18.csv
  Thank you once again for your assistance. I look forward to your reply.

Best regards,
Pin Xu

彼岸花开
@.***

 
…

The exchange has continued on the Google Sheet used for Clinica support.