mriqc-users

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Welcome to the mriqc-users mailing list!

For general documentation, please visit mriqc.readthedocs.io.

To report errors or request new features, please go to https://github.com/nipreps/mriqc/issues.

We have recently separated the ML models (e.g., the MRIQC classifier) from the MRIQC application. The new repository is found at https://github.com/nipreps/mriqc-learn

Thanks for using MRIQC!

0 selected

Elisabeth Freund2

Jun 25

cannot find mriqc_wf

I stumbled upon a solution myself. Looks like I needed to mount the working directory as a volume in

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cannot find mriqc_wf

I stumbled upon a solution myself. Looks like I needed to mount the working directory as a volume in

Jun 25

Cassandra Marotta, Oscar Esteban5

May 24

dwi crash report - expected file size not reached

Thanks Oscar, It looks like the previously computed files were the issue as after I deleted

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dwi crash report - expected file size not reached

Thanks Oscar, It looks like the previously computed files were the issue as after I deleted

May 24

Andrea Ivan Costantino, Gonzalo Castro Leal2

May 20

ValueError: Out of range float values are not JSON compliant: nan

Hi Andrea, I do not know if you still need the help. I came across this post of yours because I was

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ValueError: Out of range float values are not JSON compliant: nan

Hi Andrea, I do not know if you still need the help. I came across this post of yours because I was

May 20

Apr 17

quality rating ground truths

Hi! I am looking for the quality rating ground truths of the original dataset but I can not find it.

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quality rating ground truths

Hi! I am looking for the quality rating ground truths of the original dataset but I can not find it.

Apr 17

Mar 18

Hi! I am using an mp2rage sequence - and wondering how I should proceed with using MRIQC. I noticed

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Hi! I am using an mp2rage sequence - and wondering how I should proceed with using MRIQC. I noticed

Mar 18

Victoria Liu, … Xiaoqian Jiang5

Mar 18

no data found, no group level report is generated

For me, it need to run all the individual ones before I can proceed to the group level On Friday 16

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no data found, no group level report is generated

For me, it need to run all the individual ones before I can proceed to the group level On Friday 16

Mar 18

Dmitriy Desser, … jamy andy5

Feb 14

SNR of specific ROIs

Hi Dima et al., Has there been some updates on this topic? I am also interested in extracting various

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SNR of specific ROIs

Hi Dima et al., Has there been some updates on this topic? I am also interested in extracting various

Feb 14

11/23/23

Are visual plots of temporal noise normalized?

Hi, I'd like to include some plots of the temporal standard deviation output from mriqc in an

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Are visual plots of temporal noise normalized?

Hi, I'd like to include some plots of the temporal standard deviation output from mriqc in an

11/23/23

Linn Christin Bonaventure Norbom, Tamás Andrei Földes3

9/7/23

documentation on how to implement mriqc-learn

I can see that there is a github issue open related to this: https://github.com/nipreps/mriqc-learn/

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documentation on how to implement mriqc-learn

I can see that there is a github issue open related to this: https://github.com/nipreps/mriqc-learn/

9/7/23

Radha, … Nicholas D'Cruz8

7/10/23

RuntimeError with synthstrip

For me, increasing my swap memory did the trick. Nick On Tuesday, 20 December 2022 at 22:09:47 UTC+1

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RuntimeError with synthstrip

For me, increasing my swap memory did the trick. Nick On Tuesday, 20 December 2022 at 22:09:47 UTC+1

7/10/23

zeit problem, Oscar Esteban3

5/18/23

Running MRIQC on big dataset

Dear Ruben, > But when I want to run the entire dataset on 60 cores, it takes a while to start and

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Running MRIQC on big dataset

Dear Ruben, > But when I want to run the entire dataset on 60 cores, it takes a while to start and

5/18/23

Lukas Van Oudenhove, Jason Hohmann2

5/8/23

mriqc error on WSL2

I am having the same issue. Did you ever fix this?] 30508-13:38:33509 nipype.interface WARNING:

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mriqc error on WSL2

I am having the same issue. Did you ever fix this?] 30508-13:38:33509 nipype.interface WARNING:

5/8/23

alberto redolfi

3/31/23

Re: MRIQC DWI/DTI

Dear Oscar, Ok, I got it. I opened this thread because I understood that some users, for example, “

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Re: MRIQC DWI/DTI

Dear Oscar, Ok, I got it. I opened this thread because I understood that some users, for example, “

3/31/23

aredol...@gmail.com, Oscar Esteban2

3/31/23

Hi Alberto, At the moment, MRIQC does not support DWI. Best, Oscar On Thu, Mar 30, 2023 at 10:09 AM

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Hi Alberto, At the moment, MRIQC does not support DWI. Best, Oscar On Thu, Mar 30, 2023 at 10:09 AM

3/31/23

3/19/23

Withdrawing IQMs from Database

Hi all, I'm hoping to withdraw some IQMs from the MRIQC database. I sent a request and follow-up

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Withdrawing IQMs from Database

Hi all, I'm hoping to withdraw some IQMs from the MRIQC database. I sent a request and follow-up

3/19/23

Christina Roßmanith

1/23/23

Warning MAD=0.0

I've just processed my first data with MRIQC (docker version). Do I have to worry about warnings

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Warning MAD=0.0

I've just processed my first data with MRIQC (docker version). Do I have to worry about warnings

1/23/23

Miriam W, Oscar Esteban2

1/18/23

When you run mriqc at the participant level for each point, the tool will generate corresponding json

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When you run mriqc at the participant level for each point, the tool will generate corresponding json

1/18/23

11/27/22

installation with conda and minimal working example

Hello, as mentioned in my previous question: could someone post a clear and detailed step-by-step

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installation with conda and minimal working example

Hello, as mentioned in my previous question: could someone post a clear and detailed step-by-step

11/27/22

11/27/22

installation of mriqc with conda

Hello, could someone post a clear and detailed step-by-step method to describe how to install: https:

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installation of mriqc with conda

Hello, could someone post a clear and detailed step-by-step method to describe how to install: https:

11/27/22

10/11/22

consistant result of "Detected a zero-filled frame, has the original image been rotated?"

Hi, I am a new user of the MRIQC tool. For testing, I have run MRIQC on 20 sMRI scans through docker.

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consistant result of "Detected a zero-filled frame, has the original image been rotated?"

Hi, I am a new user of the MRIQC tool. For testing, I have run MRIQC on 20 sMRI scans through docker.

10/11/22

Ryan Cali, Molly Ireland2

8/17/22

Implement MRIQC tools in my own script

Hi Ryan, If you pip install mriqc, you should be able to access the packages in your code editor. For

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Implement MRIQC tools in my own script

Hi Ryan, If you pip install mriqc, you should be able to access the packages in your code editor. For

8/17/22

zeit problem, … Oscar Esteban9

8/17/22

MRIQC in a non-bids compliant dataset

I agree with the maintenance burden, which is even higher in open-source communities since regular

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MRIQC in a non-bids compliant dataset

I agree with the maintenance burden, which is even higher in open-source communities since regular

8/17/22

zeit problem, Oscar Esteban3

8/17/22

MRIQC in parallel processing

As I said, I'm printing out the command that is executed in each process, and it is definitely

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MRIQC in parallel processing

As I said, I'm printing out the command that is executed in each process, and it is definitely

8/17/22

7/13/22

RuntimeError with Return code:1

Hello, I am working on MRIQC on a Ubuntu 18.04 desktop. I have tried to implement it in both Docker

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RuntimeError with Return code:1

Hello, I am working on MRIQC on a Ubuntu 18.04 desktop. I have tried to implement it in both Docker

7/13/22

Cristian Reyes, … Jadyn Park3

6/8/22

Hi, I have the same error as yours above. Were you able to resolve it, by chance? On Saturday,

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Hi, I have the same error as yours above. Were you able to resolve it, by chance? On Saturday,

6/8/22

5/24/22

Cross studies motion standards

Hi all, I want to examine whether some basic motion stats (FD, DVARS) in my study are high/low

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Cross studies motion standards

Hi all, I want to examine whether some basic motion stats (FD, DVARS) in my study are high/low

5/24/22

Javier Martínez, … MacNicol, Eilidh3

5/13/22

Has MRIQC been tested on rat brain?

You are correct: The new species flag (available in 22.0.0) takes either human or rat as an input (so

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Has MRIQC been tested on rat brain?

You are correct: The new species flag (available in 22.0.0) takes either human or rat as an input (so

5/13/22

4/1/22

How to use mriqc_learn ?

Greetings everyone! I came into your GitHub project 'MRIQC _LEARN' (https://github.com/

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How to use mriqc_learn ?

Greetings everyone! I came into your GitHub project 'MRIQC _LEARN' (https://github.com/

4/1/22

Hasnae Ag, Oscar Esteban3

3/28/22

IQMs values differ between two MRIQC containers.

Hi, Thanks for the quick answer and explanations. Hasnae Le ven. 25 mars 2022 à 09:50, Oscar Esteban

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IQMs values differ between two MRIQC containers.

Hi, Thanks for the quick answer and explanations. Hasnae Le ven. 25 mars 2022 à 09:50, Oscar Esteban

3/28/22

wenq...@gmail.com, … Wenjun Huang13

3/26/22

how to use mriqc_clf in docker

Hi all, I ran the Tutorial.ipynb on on the jupyter notebooks: https://github.com/nipreps/mriqc-learn/

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how to use mriqc_clf in docker

Hi all, I ran the Tutorial.ipynb on on the jupyter notebooks: https://github.com/nipreps/mriqc-learn/

3/26/22

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