bids_convert crashing about brkraw

[egarza]

Hi,

Yes that was the problem, should've noticed. Thank you, that was resolved.

BTW, regarding the JSON, I meant you only need changing 'Model20p_bids.json' file instead of all other files, but this option only allows one task per dataset.

Because the value in 'task' in the filename seems not sufficient to use as task value, I'm considering other options, such as combine with task_event file, which researcher required to upload for task-based fMRI, so be more flexible with multiple task design.

If you only have resting-state data at this point, please fill out the 'TaskName' field in Model20p_bids.json such as 'resting state'. It would create the JSON for all single files with the given value. I hope this works for you.

Yes this fixed the Task issue as well.
My suggestion would be to consider multiple tasks, that could be implemented from your XLSX file for easiness. Such as rest1, rest2, or rest, visual, etc.

Thanks again, we are loving this converter and our lab will use it for now.

[egarza]

I ran everything again with the "default" SessID and it worked.

Can SessID be modified such as SubjectID?

Otherwise, it worked great.

Thank you

Eduardo

[egarza]

In the JSON, "TaskName": "Value was not specified", however I did put rest as the task in the XLSX.

[dvm-shlee]

@egarza could you send me the xlsx file showing the issue?

[egarza]

It's in my comment. It's a Google drive

[dvm-shlee]

@egarza The SessID is modifiable as SubjID. According to the error message you posted, it seems the pandas do not recognize the 'SessID' column. So wondering if the file you put a link on your commend is the file that causing the error or with the default session?

Thanks!

[dvm-shlee]

@egarza Regarding the JSON, The "Value was not specified" message will be added when it is assigned as null at the JSON file, and unfortunately, the JSON does not communicate with BIDS sheets, so you need to provide the value for the TaskName by editing the JSON file.

This means that if you have multiple tasks design, it requires manual updates for a single file.
I'm considering making an additional tool to handle that since it is really hard to implement on the conversion step without the user input, but if you have any suggestions (such as using task field value to implant JSON is enough) I could implement that.

[egarza]

The file I uploaded was the one that DID NOT work. I can upload the file that DID work. I just left the SessIDalone, no changes on the column name. I'll upload the working file in a moment.

About the JSON, if the task field from the XLSX can be sent to the JSON that would help a lot, otherwise changing eaach individual JSON can become challenging.

Thanks

[dvm-shlee]

@egarza BTW, regarding the JSON, I meant you only need changing 'Model20p_bids.json' file instead of all other files, but this option only allows one task per dataset.

Because the value in 'task' in the filename seems not sufficient to use as task value, I'm considering other options, such as combine with task_event file, which researcher required to upload for task-based fMRI, so be more flexible with multiple task design.

If you only have resting-state data at this point, please fill out the 'TaskName' field in Model20p_bids.json such as 'resting state'. It would create the JSON for all single files with the given value. I hope this works for you.

[dvm-shlee]

@egarza Regarding the BIDS sheet, the error caused because the BIDS sheet is not the first datasheet in excel. My code only takes the sheet located at first tap, so when it processed it takes an empty sheet. (It not related to the name of the sheet. To prevent a future issue with this, I will make an update to take a sheet only with a particular name (such as BIDS), so adding an additional sheet could not affect conversion.

Please check the below image.

If you change the above as below, it will work again.

I hope this can resolve your problem. And thank you for reporting this issue