[RESOLVED] The hcp pipeline 4.7.0 in qunex

Use Questions
1

Dear experts,

I want to use HCP-pipelines 4.7.0, which version of qunex (singularity) should I use?

2

Hi Caffrey,

Welcome to the QuNex forum.

If I am not mistaken, 0.99.2d is what you are looking for. Note that we do not have a precompiled Singularity image for this version as it is more than 2 years old. So you will either have to use Docker or build the Singularity image yourself. Hope this is fine. If not, please let me know and I can prepare and upload this image.

Best, Jure

3

Hi Jure,

Thank you for your reply. I have built the singularity version using the singularity build command.

I also want to use ANFI v.19.0, which version of qunex (singularity) should I use?

Caffrey

4

If I am not mistaken, AFNI 19 was released on January 11, 2019, which is super old. The oldest version of QuNex that is available is 0_44_07, note that the tag does not use periods but underscores :). This version is from June 2019.

I cannot say what exactly is in there as this is really really old and early. These tools are mainly backwards compatible, any particular reason you are looking for versions that are more than 5 years old?

Best, Jure

5

Thank you for your reply.

I’m trying to reproduce the results of an article where data processing uses old versions of AFNI and the HCP pipeline. Since this version is too old, I plan to try the new version first. Which version of AFNI is used in QuNex 0.99.2d and latest version of QuNex?

6

Current version uses the latest (25 I believe). Note there is an issue with a missing library for AFNI, it should be fixed in the next version (to be released in 2 weeks). So maybe use 1.3.x for AFNI right now.

To check what is in the container, what you can do is enter the container, source the environment if it does not load automatically (source /opt/qunex/env/qunex_environment.sh) and then run qx_env_status.

If you use the qunex_container script to interface with the container, you can use only the --envstatus flag to achieve the same, so qunex_container --envstatus --container=/home/jd/qunex-1.4.0.sifor similar.

This is the relevant part of the printout from 0.99.2d:

AFNI Binary  : /opt/AFNI/AFNI/afni
AFNI Version : Precompiled binary linux_centos_7_64: Jan 11 2024 (Version AFNI_24.0.01 'Caracalla')

Best, Jure