From davide.coraci at imtlucca.it Fri Apr 5 10:59:40 2024 From: davide.coraci at imtlucca.it (Davide Coraci) Date: Fri, 5 Apr 2024 16:59:40 +0200 Subject: [Neuroimaging] Call for participants - WasON study Message-ID: Dear list members, We are recruiting participants worldwide and it would be fantastic if you could take part in the WasON study. The aim of the study is to investigate how *neuroscientists* and researchers (psychologists, cognitive scientists, philosophers, etc.) with some familiarity with neuroimaging techniques draw associations between *cognitive processes* and *fMRI data* observed experimentally. The study has been developed by the SANe and the MInD units (MoMiLab research group at IMT School Lucca, Italy) and can be found here: https://www.sane-elab.eu/NRIA/welcome.php. The questionnaire can be completed through PC or smartphone (however, the use of the PC is warmly suggested to visualize the fMRI maps better). Collected data will be completely *anonymous*. Once the questionnaire is finished, you can *check your accuracy* and decide to continue with another set of questions. In this case, please do not close or restart the session, otherwise the system will create another participant ID. We ask you to complete the questionnaire individually. However, after completing the survey you may want to compare your score with one of your lab mates and colleagues. Feel free to forward the link to anyone you think could be interested. If you have any questions or just want to be updated with the results of the study, please do not hesitate to contact us (davide.coraci at imtlucca.it). Thank you very much for your availability and your time. All the best, Davide Coraci -- Davide Coraci Phd Student IMT School for Advanced Studies Lucca MoMiLab - *Molecular Mind Laboratory* MInD - *Models, Inference, and Decisions * https://www.davidecoraci.com/welcome.php -------------- next part -------------- An HTML attachment was scrubbed... URL: From remi.gau at gmail.com Wed Apr 10 12:42:01 2024 From: remi.gau at gmail.com (Remi Gau) Date: Wed, 10 Apr 2024 18:42:01 +0200 Subject: [Neuroimaging] Nilearn 0.10.4 is out Message-ID: <2ebfc2d4-f9d6-441d-8a42-68f3c3fe7715@gmail.com> An HTML attachment was scrubbed... URL: From bertrand.thirion at inria.fr Thu Apr 11 02:11:13 2024 From: bertrand.thirion at inria.fr (Bertrand Thirion) Date: Thu, 11 Apr 2024 08:11:13 +0200 Subject: [Neuroimaging] Nilearn 0.10.4 is out In-Reply-To: <2ebfc2d4-f9d6-441d-8a42-68f3c3fe7715@gmail.com> References: <2ebfc2d4-f9d6-441d-8a42-68f3c3fe7715@gmail.com> Message-ID: Many thanks ! Bertrand Le 10/04/2024 ? 18:42, Remi Gau a ?crit?: > > Hello everyone > > Hello everyone!! > > We have just released Nilearn 0.10.4! ? > > This is a patchrelease that mostly fixes bugs introduced by the > previous release or older bugs that had gone unnoticed until now. > > * > > Several bugs were affecting the maskers reports > and > GLM report > > > * > > Improve colorbar size and labels in mosaic display > > * > > Remove unused kwargs from several functions > > You can see the full changelog of this release here: > https://nilearn.github.io/stable/changes/whats_new.html#id1 > > > The full list of pull requests included in this version: > > https://github.com/nilearn/nilearn/releases/tag/0.10.4 > > > > The full ?diff? since last version: > > https://github.com/nilearn/nilearn/compare/0.10.3...0.10.4 > > > > New contributors: > > * > > Himanshu Aggarwal (https://github.com/man-shu > ) made their first contribution > inhttps://github.com/nilearn/nilearn/pull/4318 > > > * > > Florent Pollet (https://github.com/florian6973 > ) made their first contribution > inhttps://github.com/nilearn/nilearn/pull/4343 > > > Update from PyPi: > > pip install --upgrade nilearn > > Nilearn links: > > * Github: https://github.com/nilearn/nilearn > > * X: https://twitter.com/nilearn > * Mastodon: https://fosstodon.org/@nilearn > > * Pypi: https://pypi.org/project/nilearn/ > > * Documentation: https://nilearn.github.io > > * Discord: https://discord.gg/SsQABEJHkZ > * Zenodo DOI: https://doi.org/10.5281/zenodo.8397156 > > > @+ > > -- > > *R?mi Gau* > > > _______________________________________________ > Neuroimaging mailing list > Neuroimaging at python.org > https://mail.python.org/mailman/listinfo/neuroimaging -------------- next part -------------- An HTML attachment was scrubbed... URL: From a.crimi at sanoscience.org Thu Apr 11 06:19:46 2024 From: a.crimi at sanoscience.org (Alex Crimi) Date: Thu, 11 Apr 2024 10:19:46 +0000 Subject: [Neuroimaging] follow-up study with low-field MRI Message-ID: Dear all, we just published a work about graph analysis on brain tumor predicting the connectome after brainsurgery given a pre-surgery scan: Falco-Roget et al. Nature Communication Bio https://www.nature.com/articles/s42003-024-06119-3 It will be great if one of you cool people working with portable low-field MRI (e.g. Hyperfine) will be interested in a follow up. E.g. if you have data of pre- post- surgery all low-field. Or similar data from low-income countries (e.g. Sub-Saharan Africa). feel free to contact us for collaboration or joint grant. Best, Alex ---------------------------------------------------------------------------------------------- Things learnt while dealing with pregnant women, startups and goats: https://www.amazon.com/dp/178133840X [cid:f9840bd3-435d-4f25-97b5-d6e7bd2ebc4d] Dr. Alessandro Crimi Research Group Leader https://bam.sano.science [cid:8f07a0e1-8523-4a2d-a595-eb06ad2a8ccc] Centre for Computational Medicine Czarnowiejska 36, building C5. 30-072 Krak?w, Poland Phone: +48 575 455 016 www.sano.science -----------------------------------------------v https://twitter.com/Dr_Alex_Crimi -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: Outlook-khyext0a.jpg Type: image/jpeg Size: 92548 bytes Desc: Outlook-khyext0a.jpg URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: Outlook-yd22pf3r.png Type: image/png Size: 12229 bytes Desc: Outlook-yd22pf3r.png URL: From ludovico.montalcini at gmail.com Thu Apr 11 10:03:19 2024 From: ludovico.montalcini at gmail.com (Ludovico Montalcini) Date: Thu, 11 Apr 2024 16:03:19 +0200 Subject: [Neuroimaging] Call for Papers & Participation 2nd International Meeting on Foundation Models - IMFM 2024 co-located event at the 10th International Conference on Learning, Optimization & Data - LOD 2024 In-Reply-To: References: Message-ID: Call for Papers & Participation * 2nd International Meeting on Foundation Models - IMFM 2024 * *co-located event at the 10th International Conference on Learning, Optimization & Data - LOD 2024* Call for Papers & Participation 22-25 September 2024 Riva del Sole Resort & SPA, Castiglione della Pescaia (Grosseto) Tuscany, Italy *Submission Deadline: April 23* https://lod2024.icas.events/imfm2024/ We invite abstracts and papers on a broad range of subject areas focused on Foundation Models. It follows a non-exhaustive list of topics of interests: *Language* ? Large Language Models. *Vision* ? Large Vision Models. *Math* Foundation Models, *Code* Foundation Models. *Multimodal Foundation Models (Vision and Language*, *Beyond Vision and Language) * *Alignment* (in-context alignment & reinforcement learning). *Applications of FMs* (biology, chemistry, drug science, engineering, medicine, material science, physics, ?). *Assessment of FMs* (benchmarks, evaluation protocols, human/machine evaluation, metrics, scalable oversight, simulation environments). *Data** for FMs *(alignment data, curation data, generation data, pre-training data, synthetic data). *Efficiency and Robustness of FMs (*compression, distillation, memory efficient methods, quantization, robustness, sample efficient methods, sensitivity analysis*).* *Embodiment and FMs *(action, multimodality, perception & robotics). *Engineering aspects for FMs* (distributed training, FM-driven software engineering, integration with tools and APIs, optimization instability, training dynamics). *Interactions with FMs (*conversation, interactive learning & multi-agents learning, factuality, retrieval-augmented *FMs*, knowledge models, common-sense reasoning, theory of mind, social norms, and world models*).* *Learning for FMs (*learning, *un*learning, meta learning, multi-task learning, model mixing methods, lifelong learning*, *decoding algorithms, reasoning algorithms, search algorithms, planning algorithms*).* *Personalizing* FMs. *Safety, Security and Privacy for FMs *(adversarial attacks, defences, and misinformation). *Theory** of FMs* (computational time complexity, computational space complexity, phase transitions, scaling laws, fundamental limitations, emergent capabilities, demystification, interpretability, training dynamics, grokking, learning theory for Foundation Models). *Tuning of FMs* (fine-tuning, instruction-tuning, prompt tuning). *LOD 2024 / IMFM 2024 Keynote Speakers:* *Vivek Natarajan*, Google Health AI, San Francisco Bay Area, CA, USA ?*How LLMs might accelerate biomedical discovery and help scale world class healthcare to everyone*? *Michal Valko*, Google DeepMind Paris, INRIA & ?cole Normale Sup?rieure Paris-Saclay, France ?*Fine Tuning Large Language Models & Gemini*? *Sven Giesselbach*, Fraunhofer Institute ? IAIS, Germany Title TBA *Important Dates: * paper submission deadline: Tuesday April 23, 2024 (AoE) paper acceptance decision to authors: by Thursday May 23, 2024 Camera Ready Submission Deadline: by Sunday June 23, 2024 All papers must be submitted using EasyChair (please select the track: ?*2nd International Meeting on Foundation Models*? short name: ?*2nd IMFM2024*?). https://easychair.org/conferences/?conf=lod2024 All accepted papers will be published in a volume of the series on Lecture Notes in Computer Science (LNCS) from Springer ? Nature after the conference (Conference Post-Proceedings). The call for papers (CfP) for the LOD 2024 event on ?Foundation Models? is the same CfP used for the entire LOD 2024 conference. Organizers and Chairs: Giuseppe Nicosia, University of Catania, Italy Sven Giesselbach, Fraunhofer Institute ? IAIS, Germany -------------- next part -------------- An HTML attachment was scrubbed... URL: From Paradeisios.Boulakis at uliege.be Sat Apr 13 09:12:57 2024 From: Paradeisios.Boulakis at uliege.be (Boulakis Paradeisios) Date: Sat, 13 Apr 2024 13:12:57 +0000 Subject: [Neuroimaging] nipype pipeline crashes at final step due to pathing issues Message-ID: Hello everyone, I have the following pipeline. # %% infosource = Node(IdentityInterface(fields="subject_list"]), name="infosource") infosource.iterables = [("subject_list", subject_list)] templates = { "mask": "{subject_list}/func/{subject_list}_task-gonogo_run-{run_list}_space-MNI152NLin2009cAsym_desc-brain_mask.nii.gz", "func": "{subject_list}/func/{subject_list}_task-gonogo_run-{run_list}_*_desc-smooth+preproc_bold.nii.gz", "confounds": "{subject_list}/func/{subject_list}_task-gonogo_run-{run_list}_desc-confounds_timeseries.tsv", } selectfiles = MapNode( SelectFiles(templates), name="selectfiles", iterfield=["run_list"] ) selectfiles.inputs.base_directory = res_dir selectfiles.inputs.run_list = run_list sink = Node(DataSink(), name="sink") sink.inputs.base_directory = str(res_dir) # %% desmat = MapNode( Function( input_names=["confounds", "res_dir", "gs"], output_names=["confound_txt"], function=filter_confound_file, ), name="desmat", iterfield=["confounds"], ) desmat.inputs.res_dir = res_dir desmat.inputs.gs = False glm = MapNode(GLM(), name="glm", iterfield=["design", "in_file", "mask"]) glm.inputs.out_res_name = "glm_residuals.nii" glm.inputs.out_file = "glm.nii" glm.inputs.output_type = "NIFTI" glm.inputs.demean = False # Bandpass Filtering bpf = MapNode(Bandpass(), name="bpf", iterfield=["in_file"]) bpf.inputs.lowpass = 0.09 bpf.inputs.highpass = 0.008 bpf.inputs.tr = TR bpf.inputs.out_file = "bpf_filt" # %% den_workflow = Workflow(name="den_workflow") den_workflow.base_dir = str(res_dir) den_workflow.connect(infosource, "subject_list", selectfiles, "subject_list") den_workflow.connect(selectfiles, "confounds", desmat, "confounds") den_workflow.connect(selectfiles, "func", glm, "in_file") den_workflow.connect(selectfiles, "mask", glm, "mask") den_workflow.connect(desmat, "confound_txt", glm, "design") den_workflow.connect(glm, "out_res", bpf, "in_file") den_workflow.connect(glm, "out_res", sink, "glm. at out_res") den_workflow.connect(glm, "out_file", sink, "glm. at out_file") den_workflow.connect(bpf, "out_file", sink, "bpf. at bpf_filt") For every of the four runs that I feed in the pipeline, I get the following error 240412-23:41:13,610 nipype.workflow INFO: ?????? Workflow den_workflow settings: ['check', 'execution', 'logging', 'monitoring'] 240412-23:41:13,621 nipype.workflow INFO: ?????? Running in parallel. 240412-23:41:13,659 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:41:15,663 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 4 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:41:15,777 nipype.workflow INFO: ?????? [Node] Setting-up "_selectfiles0" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/selectfiles/mapflow/_selectfiles0". 240412-23:41:15,779 nipype.workflow INFO: ?????? [Node] Setting-up "_selectfiles2" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/selectfiles/mapflow/_selectfiles2". 240412-23:41:15,778 nipype.workflow INFO: ?????? [Node] Setting-up "_selectfiles1" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/selectfiles/mapflow/_selectfiles1". 240412-23:41:15,780 nipype.workflow INFO: ?????? [Node] Setting-up "_selectfiles3" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/selectfiles/mapflow/_selectfiles3". 240412-23:41:15,788 nipype.workflow INFO: ?????? [Node] Executing "_selectfiles0" 240412-23:41:15,789 nipype.workflow INFO: ?????? [Node] Executing "_selectfiles1" 240412-23:41:15,790 nipype.workflow INFO: ?????? [Node] Executing "_selectfiles2" 240412-23:41:15,791 nipype.workflow INFO: ?????? [Node] Executing "_selectfiles3" 240412-23:41:15,795 nipype.workflow INFO: ?????? [Node] Finished "_selectfiles0", elapsed time 0.0027s. 240412-23:41:15,796 nipype.workflow INFO: ?????? [Node] Finished "_selectfiles1", elapsed time 0.002676s. 240412-23:41:15,796 nipype.workflow INFO: ?????? [Node] Finished "_selectfiles2", elapsed time 0.002495s. 240412-23:41:15,797 nipype.workflow INFO: ?????? [Node] Finished "_selectfiles3", elapsed time 0.002494s. 240412-23:41:17,666 nipype.workflow INFO: ?????? [Job 5] Completed (_selectfiles0). 240412-23:41:17,670 nipype.workflow INFO: ?????? [Job 6] Completed (_selectfiles1). 240412-23:41:17,672 nipype.workflow INFO: ?????? [Job 7] Completed (_selectfiles2). 240412-23:41:17,674 nipype.workflow INFO: ?????? [Job 8] Completed (_selectfiles3). 240412-23:41:17,677 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:41:17,785 nipype.workflow INFO: ?????? [Node] Setting-up "_selectfiles0" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/selectfiles/mapflow/_selectfiles0". 240412-23:41:17,792 nipype.workflow INFO: ?????? [Node] Executing "_selectfiles0" 240412-23:41:17,796 nipype.workflow INFO: ?????? [Node] Finished "_selectfiles0", elapsed time 0.001777s. 240412-23:41:17,801 nipype.workflow INFO: ?????? [Node] Setting-up "_selectfiles1" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/selectfiles/mapflow/_selectfiles1". 240412-23:41:17,804 nipype.workflow INFO: ?????? [Node] Executing "_selectfiles1" 240412-23:41:17,806 nipype.workflow INFO: ?????? [Node] Finished "_selectfiles1", elapsed time 0.000648s. 240412-23:41:17,809 nipype.workflow INFO: ?????? [Node] Setting-up "_selectfiles2" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/selectfiles/mapflow/_selectfiles2". 240412-23:41:17,812 nipype.workflow INFO: ?????? [Node] Executing "_selectfiles2" 240412-23:41:17,814 nipype.workflow INFO: ?????? [Node] Finished "_selectfiles2", elapsed time 0.000631s. 240412-23:41:17,817 nipype.workflow INFO: ?????? [Node] Setting-up "_selectfiles3" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/selectfiles/mapflow/_selectfiles3". 240412-23:41:17,819 nipype.workflow INFO: ?????? [Node] Executing "_selectfiles3" 240412-23:41:17,821 nipype.workflow INFO: ?????? [Node] Finished "_selectfiles3", elapsed time 0.0007s. 240412-23:41:19,666 nipype.workflow INFO: ?????? [Job 0] Completed (den_workflow.selectfiles). 240412-23:41:19,671 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:41:21,669 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 4 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:41:21,732 nipype.workflow INFO: ?????? [Node] Setting-up "_desmat3" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/desmat/mapflow/_desmat3". 240412-23:41:21,732 nipype.workflow INFO: ?????? [Node] Setting-up "_desmat0" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/desmat/mapflow/_desmat0". 240412-23:41:21,733 nipype.workflow INFO: ?????? [Node] Setting-up "_desmat1" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/desmat/mapflow/_desmat1". 240412-23:41:21,733 nipype.workflow INFO: ?????? [Node] Setting-up "_desmat2" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/desmat/mapflow/_desmat2". 240412-23:41:21,738 nipype.workflow INFO: ?????? [Node] Executing "_desmat3" 240412-23:41:21,744 nipype.workflow INFO: ?????? [Node] Executing "_desmat1" 240412-23:41:21,744 nipype.workflow INFO: ?????? [Node] Executing "_desmat0" 240412-23:41:21,744 nipype.workflow INFO: ?????? [Node] Executing "_desmat2" 240412-23:41:21,822 nipype.workflow INFO: ?????? [Node] Finished "_desmat2", elapsed time 0.07478s. 240412-23:41:21,828 nipype.workflow INFO: ?????? [Node] Finished "_desmat0", elapsed time 0.080424s. 240412-23:41:21,829 nipype.workflow INFO: ?????? [Node] Finished "_desmat3", elapsed time 0.088039s. 240412-23:41:21,844 nipype.workflow INFO: ?????? [Node] Finished "_desmat1", elapsed time 0.096595s. 240412-23:41:23,670 nipype.workflow INFO: ?????? [Job 9] Completed (_desmat0). 240412-23:41:23,673 nipype.workflow INFO: ?????? [Job 10] Completed (_desmat1). 240412-23:41:23,675 nipype.workflow INFO: ?????? [Job 11] Completed (_desmat2). 240412-23:41:23,677 nipype.workflow INFO: ?????? [Job 12] Completed (_desmat3). 240412-23:41:23,680 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:41:23,757 nipype.workflow INFO: ?????? [Node] Setting-up "_desmat0" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/desmat/mapflow/_desmat0". 240412-23:41:23,760 nipype.workflow INFO: ?????? [Node] Cached "_desmat0" - collecting precomputed outputs 240412-23:41:23,762 nipype.workflow INFO: ?????? [Node] "_desmat0" found cached. 240412-23:41:23,764 nipype.workflow INFO: ?????? [Node] Setting-up "_desmat1" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/desmat/mapflow/_desmat1". 240412-23:41:23,766 nipype.workflow INFO: ?????? [Node] Cached "_desmat1" - collecting precomputed outputs 240412-23:41:23,767 nipype.workflow INFO: ?????? [Node] "_desmat1" found cached. 240412-23:41:23,769 nipype.workflow INFO: ?????? [Node] Setting-up "_desmat2" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/desmat/mapflow/_desmat2". 240412-23:41:23,771 nipype.workflow INFO: ?????? [Node] Cached "_desmat2" - collecting precomputed outputs 240412-23:41:23,772 nipype.workflow INFO: ?????? [Node] "_desmat2" found cached. 240412-23:41:23,774 nipype.workflow INFO: ?????? [Node] Setting-up "_desmat3" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/desmat/mapflow/_desmat3". 240412-23:41:23,776 nipype.workflow INFO: ?????? [Node] Cached "_desmat3" - collecting precomputed outputs 240412-23:41:23,777 nipype.workflow INFO: ?????? [Node] "_desmat3" found cached. 240412-23:41:25,673 nipype.workflow INFO: ?????? [Job 1] Completed (den_workflow.desmat). 240412-23:41:25,677 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:41:27,676 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 4 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:41:27,741 nipype.workflow INFO: ?????? [Node] Setting-up "_glm0" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/glm/mapflow/_glm0". 240412-23:41:27,741 nipype.workflow INFO: ?????? [Node] Setting-up "_glm1" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/glm/mapflow/_glm1". 240412-23:41:27,743 nipype.workflow INFO: ?????? [Node] Setting-up "_glm2" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/glm/mapflow/_glm2". 240412-23:41:27,744 nipype.workflow INFO: ?????? [Node] Setting-up "_glm3" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/glm/mapflow/_glm3". 240412-23:41:27,747 nipype.workflow INFO: ?????? [Node] Executing "_glm0" 240412-23:41:27,747 nipype.workflow INFO: ?????? [Node] Executing "_glm1" 240412-23:41:27,749 nipype.workflow INFO: ?????? [Node] Executing "_glm2" 240412-23:41:27,750 nipype.workflow INFO: ?????? [Node] Executing "_glm3" 240412-23:41:29,678 nipype.workflow INFO: ?????? [MultiProc] Running 4 tasks, and 0 jobs ready. Free memory (GB): 338.05/338.85, Free processors: 4/8. Currently running: * _glm3 * _glm2 * _glm1 * _glm0 240412-23:41:59,159 nipype.workflow INFO: ?????? [Node] Finished "_glm2", elapsed time 31.407655s. 240412-23:41:59,709 nipype.workflow INFO: ?????? [Job 15] Completed (_glm2). 240412-23:41:59,712 nipype.workflow INFO: ?????? [MultiProc] Running 3 tasks, and 0 jobs ready. Free memory (GB): 338.25/338.85, Free processors: 5/8. Currently running: * _glm3 * _glm1 * _glm0 240412-23:42:02,40 nipype.workflow INFO: ?????? [Node] Finished "_glm0", elapsed time 34.290153s. 240412-23:42:03,712 nipype.workflow INFO: ?????? [Job 13] Completed (_glm0). 240412-23:42:03,716 nipype.workflow INFO: ?????? [MultiProc] Running 2 tasks, and 0 jobs ready. Free memory (GB): 338.45/338.85, Free processors: 6/8. Currently running: * _glm3 * _glm1 240412-23:42:10,682 nipype.workflow INFO: ?????? [Node] Finished "_glm3", elapsed time 42.929641s. 240412-23:42:11,720 nipype.workflow INFO: ?????? [Job 16] Completed (_glm3). 240412-23:42:11,724 nipype.workflow INFO: ?????? [MultiProc] Running 1 tasks, and 0 jobs ready. Free memory (GB): 338.65/338.85, Free processors: 7/8. Currently running: * _glm1 240412-23:42:20,113 nipype.workflow INFO: ?????? [Node] Finished "_glm1", elapsed time 52.362164s. 240412-23:42:21,731 nipype.workflow INFO: ?????? [Job 14] Completed (_glm1). 240412-23:42:21,734 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:42:21,817 nipype.workflow INFO: ?????? [Node] Setting-up "_glm0" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/glm/mapflow/_glm0". 240412-23:42:21,822 nipype.workflow INFO: ?????? [Node] Cached "_glm0" - collecting precomputed outputs 240412-23:42:21,823 nipype.workflow INFO: ?????? [Node] "_glm0" found cached. 240412-23:42:21,826 nipype.workflow INFO: ?????? [Node] Setting-up "_glm1" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/glm/mapflow/_glm1". 240412-23:42:21,829 nipype.workflow INFO: ?????? [Node] Cached "_glm1" - collecting precomputed outputs 240412-23:42:21,830 nipype.workflow INFO: ?????? [Node] "_glm1" found cached. 240412-23:42:21,833 nipype.workflow INFO: ?????? [Node] Setting-up "_glm2" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/glm/mapflow/_glm2". 240412-23:42:21,835 nipype.workflow INFO: ?????? [Node] Cached "_glm2" - collecting precomputed outputs 240412-23:42:21,836 nipype.workflow INFO: ?????? [Node] "_glm2" found cached. 240412-23:42:21,839 nipype.workflow INFO: ?????? [Node] Setting-up "_glm3" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/glm/mapflow/_glm3". 240412-23:42:21,841 nipype.workflow INFO: ?????? [Node] Cached "_glm3" - collecting precomputed outputs 240412-23:42:21,842 nipype.workflow INFO: ?????? [Node] "_glm3" found cached. 240412-23:42:23,733 nipype.workflow INFO: ?????? [Job 2] Completed (den_workflow.glm). 240412-23:42:23,737 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 1 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:42:25,736 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 4 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:42:25,796 nipype.workflow INFO: ?????? [Node] Setting-up "_bpf0" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf0". 240412-23:42:25,798 nipype.workflow INFO: ?????? [Node] Setting-up "_bpf1" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf1". 240412-23:42:25,798 nipype.workflow INFO: ?????? [Node] Setting-up "_bpf2" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf2". 240412-23:42:25,799 nipype.workflow INFO: ?????? [Node] Setting-up "_bpf3" in "/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf3". 240412-23:42:25,803 nipype.workflow INFO: ?????? [Node] Executing "_bpf0" 240412-23:42:25,804 nipype.workflow INFO: ?????? [Node] Executing "_bpf2" 240412-23:42:25,804 nipype.workflow INFO: ?????? [Node] Executing "_bpf1" 240412-23:42:25,804 nipype.workflow INFO: ?????? [Node] Executing "_bpf3" 240412-23:42:25,933 nipype.workflow INFO: ?????? [Node] Finished "_bpf3", elapsed time 0.124582s. 240412-23:42:25,934 nipype.workflow WARNING: ?????? Storing result file without outputs 240412-23:42:25,935 nipype.workflow WARNING: ?????? [Node] Error on "_bpf3" (/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf3) 240412-23:42:25,940 nipype.workflow INFO: ?????? [Node] Finished "_bpf2", elapsed time 0.132846s. 240412-23:42:25,940 nipype.workflow INFO: ?????? [Node] Finished "_bpf1", elapsed time 0.132766s. 240412-23:42:25,941 nipype.workflow WARNING: ?????? Storing result file without outputs 240412-23:42:25,941 nipype.workflow WARNING: ?????? Storing result file without outputs 240412-23:42:25,942 nipype.workflow WARNING: ?????? [Node] Error on "_bpf2" (/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf2) 240412-23:42:25,943 nipype.workflow WARNING: ?????? [Node] Error on "_bpf1" (/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf1) 240412-23:42:25,943 nipype.workflow INFO: ?????? [Node] Finished "_bpf0", elapsed time 0.136747s. 240412-23:42:25,944 nipype.workflow WARNING: ?????? Storing result file without outputs 240412-23:42:25,946 nipype.workflow WARNING: ?????? [Node] Error on "_bpf0" (/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf0) 240412-23:42:27,738 nipype.workflow ERROR: ?????? Node _bpf0 failed to run on host kronos. 240412-23:42:27,740 nipype.workflow ERROR: ?????? Saving crash info to /home/boulakispar/Documents/GitLab/mb_monash/crash-20240412-234227-boulakispar-_bpf0-3ca9a142-ee02-4959-a9af-855aaa3b0d3b.pklz Traceback (most recent call last): File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/plugins/multiproc.py", line 67, in run_node result["result"] = node.run(updatehash=updatehash) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 527, in run result = self._run_interface(execute=True) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 645, in _run_interface return self._run_command(execute) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 771, in _run_command raise NodeExecutionError(msg) nipype.pipeline.engine.nodes.NodeExecutionError: Exception raised while executing Node _bpf0. Cmdline: ??????3dBandpass -prefix bpf_filt -dt 1.560000 0.008000 0.090000 /data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf0/glm_residuals.nii Stdout: Stderr: ??????++ 3dBandpass: AFNI version=AFNI_23.1.10 (Jul 8 2023) [64-bit] ??????++ Authored by: RW Cox ??????*+ WARNING: (-: For most purposes, 3dTproject is superior to 3dBandpass :-) ??????*+ WARNING: (-: Even better is to use afni_proc.py for pre-processing!! :-) ??????** AFNI can't deal with 5 dimensional NIfTI(/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf0/glm_residuals.nii) ??????** FATAL ERROR: Can't open dataset '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf0/glm_residuals.nii' ??????** Program compile date = Jul 8 2023 Traceback: ??????Traceback (most recent call last): ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 453, in aggregate_outputs ?????? setattr(outputs, key, val) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/traits_extension.py", line 330, in validate ?????? value = super(File, self).validate(objekt, name, value, return_pathlike=True) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/traits_extension.py", line 135, in validate ?????? self.error(objekt, name, str(value)) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/traits/base_trait_handler.py", line 74, in error ?????? raise TraitError( ??????traits.trait_errors.TraitError: The 'out_file' trait of an AFNICommandOutputSpec instance must be a pathlike object or string representing an existing file, but a value of '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf0/bpf_filt+orig.BRIK' was specified. ??????During handling of the above exception, another exception occurred: ??????Traceback (most recent call last): ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 400, in run ?????? outputs = self.aggregate_outputs(runtime) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 460, in aggregate_outputs ?????? raise FileNotFoundError(msg) ??????FileNotFoundError: No such file or directory '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf0/bpf_filt+orig.BRIK' for output 'out_file' of a Bandpass interface 240412-23:42:27,745 nipype.workflow ERROR: ?????? Node _bpf1 failed to run on host kronos. 240412-23:42:27,747 nipype.workflow ERROR: ?????? Saving crash info to /home/boulakispar/Documents/GitLab/mb_monash/crash-20240412-234227-boulakispar-_bpf1-a3bb1da3-42d7-49b4-9ae8-e06988d2acde.pklz Traceback (most recent call last): File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/plugins/multiproc.py", line 67, in run_node result["result"] = node.run(updatehash=updatehash) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 527, in run result = self._run_interface(execute=True) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 645, in _run_interface return self._run_command(execute) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 771, in _run_command raise NodeExecutionError(msg) nipype.pipeline.engine.nodes.NodeExecutionError: Exception raised while executing Node _bpf1. Cmdline: ??????3dBandpass -prefix bpf_filt -dt 1.560000 0.008000 0.090000 /data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf1/glm_residuals.nii Stdout: Stderr: ??????++ 3dBandpass: AFNI version=AFNI_23.1.10 (Jul 8 2023) [64-bit] ??????++ Authored by: RW Cox ??????*+ WARNING: (-: For most purposes, 3dTproject is superior to 3dBandpass :-) ??????*+ WARNING: (-: Even better is to use afni_proc.py for pre-processing!! :-) ??????** AFNI can't deal with 5 dimensional NIfTI(/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf1/glm_residuals.nii) ??????** FATAL ERROR: Can't open dataset '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf1/glm_residuals.nii' ??????** Program compile date = Jul 8 2023 Traceback: ??????Traceback (most recent call last): ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 453, in aggregate_outputs ?????? setattr(outputs, key, val) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/traits_extension.py", line 330, in validate ?????? value = super(File, self).validate(objekt, name, value, return_pathlike=True) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/traits_extension.py", line 135, in validate ?????? self.error(objekt, name, str(value)) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/traits/base_trait_handler.py", line 74, in error ?????? raise TraitError( ??????traits.trait_errors.TraitError: The 'out_file' trait of an AFNICommandOutputSpec instance must be a pathlike object or string representing an existing file, but a value of '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf1/bpf_filt+orig.BRIK' was specified. ??????During handling of the above exception, another exception occurred: ??????Traceback (most recent call last): ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 400, in run ?????? outputs = self.aggregate_outputs(runtime) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 460, in aggregate_outputs ?????? raise FileNotFoundError(msg) ??????FileNotFoundError: No such file or directory '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf1/bpf_filt+orig.BRIK' for output 'out_file' of a Bandpass interface 240412-23:42:27,751 nipype.workflow ERROR: ?????? Node _bpf2 failed to run on host kronos. 240412-23:42:27,752 nipype.workflow ERROR: ?????? Saving crash info to /home/boulakispar/Documents/GitLab/mb_monash/crash-20240412-234227-boulakispar-_bpf2-6bf1f3af-7735-4fe0-a110-41e411055e90.pklz Traceback (most recent call last): File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/plugins/multiproc.py", line 67, in run_node result["result"] = node.run(updatehash=updatehash) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 527, in run result = self._run_interface(execute=True) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 645, in _run_interface return self._run_command(execute) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 771, in _run_command raise NodeExecutionError(msg) nipype.pipeline.engine.nodes.NodeExecutionError: Exception raised while executing Node _bpf2. Cmdline: ??????3dBandpass -prefix bpf_filt -dt 1.560000 0.008000 0.090000 /data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf2/glm_residuals.nii Stdout: Stderr: ??????++ 3dBandpass: AFNI version=AFNI_23.1.10 (Jul 8 2023) [64-bit] ??????++ Authored by: RW Cox ??????*+ WARNING: (-: For most purposes, 3dTproject is superior to 3dBandpass :-) ??????*+ WARNING: (-: Even better is to use afni_proc.py for pre-processing!! :-) ??????** AFNI can't deal with 5 dimensional NIfTI(/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf2/glm_residuals.nii) ??????** FATAL ERROR: Can't open dataset '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf2/glm_residuals.nii' ??????** Program compile date = Jul 8 2023 Traceback: ??????Traceback (most recent call last): ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 453, in aggregate_outputs ?????? setattr(outputs, key, val) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/traits_extension.py", line 330, in validate ?????? value = super(File, self).validate(objekt, name, value, return_pathlike=True) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/traits_extension.py", line 135, in validate ?????? self.error(objekt, name, str(value)) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/traits/base_trait_handler.py", line 74, in error ?????? raise TraitError( ??????traits.trait_errors.TraitError: The 'out_file' trait of an AFNICommandOutputSpec instance must be a pathlike object or string representing an existing file, but a value of '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf2/bpf_filt+orig.BRIK' was specified. ??????During handling of the above exception, another exception occurred: ??????Traceback (most recent call last): ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 400, in run ?????? outputs = self.aggregate_outputs(runtime) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 460, in aggregate_outputs ?????? raise FileNotFoundError(msg) ??????FileNotFoundError: No such file or directory '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf2/bpf_filt+orig.BRIK' for output 'out_file' of a Bandpass interface 240412-23:42:27,757 nipype.workflow ERROR: ?????? Node _bpf3 failed to run on host kronos. 240412-23:42:27,758 nipype.workflow ERROR: ?????? Saving crash info to /home/boulakispar/Documents/GitLab/mb_monash/crash-20240412-234227-boulakispar-_bpf3-c04f129a-925a-460f-8f10-6425b1b80c0c.pklz Traceback (most recent call last): File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/plugins/multiproc.py", line 67, in run_node result["result"] = node.run(updatehash=updatehash) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 527, in run result = self._run_interface(execute=True) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 645, in _run_interface return self._run_command(execute) File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/pipeline/engine/nodes.py", line 771, in _run_command raise NodeExecutionError(msg) nipype.pipeline.engine.nodes.NodeExecutionError: Exception raised while executing Node _bpf3. Cmdline: ??????3dBandpass -prefix bpf_filt -dt 1.560000 0.008000 0.090000 /data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf3/glm_residuals.nii Stdout: Stderr: ??????++ 3dBandpass: AFNI version=AFNI_23.1.10 (Jul 8 2023) [64-bit] ??????++ Authored by: RW Cox ??????*+ WARNING: (-: For most purposes, 3dTproject is superior to 3dBandpass :-) ??????*+ WARNING: (-: Even better is to use afni_proc.py for pre-processing!! :-) ??????** AFNI can't deal with 5 dimensional NIfTI(/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf3/glm_residuals.nii) ??????** FATAL ERROR: Can't open dataset '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf3/glm_residuals.nii' ??????** Program compile date = Jul 8 2023 Traceback: ??????Traceback (most recent call last): ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 453, in aggregate_outputs ?????? setattr(outputs, key, val) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/traits_extension.py", line 330, in validate ?????? value = super(File, self).validate(objekt, name, value, return_pathlike=True) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/traits_extension.py", line 135, in validate ?????? self.error(objekt, name, str(value)) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/traits/base_trait_handler.py", line 74, in error ?????? raise TraitError( ??????traits.trait_errors.TraitError: The 'out_file' trait of an AFNICommandOutputSpec instance must be a pathlike object or string representing an existing file, but a value of '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf3/bpf_filt+orig.BRIK' was specified. ??????During handling of the above exception, another exception occurred: ??????Traceback (most recent call last): ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 400, in run ?????? outputs = self.aggregate_outputs(runtime) ?????? File "/home/boulakispar/miniforge3/envs/mb_monash/lib/python3.10/site-packages/nipype/interfaces/base/core.py", line 460, in aggregate_outputs ?????? raise FileNotFoundError(msg) ??????FileNotFoundError: No such file or directory '/data/project/mb_monash/res/preproc/den_workflow/_subject_list_sub-205/bpf/mapflow/_bpf3/bpf_filt+orig.BRIK' for output 'out_file' of a Bandpass interface 240412-23:42:27,763 nipype.workflow INFO: ?????? [MultiProc] Running 0 tasks, and 0 jobs ready. Free memory (GB): 338.85/338.85, Free processors: 8/8. 240412-23:42:29,738 nipype.workflow INFO: ?????? *********************************** 240412-23:42:29,739 nipype.workflow ERROR: ?????? could not run node: den_workflow.bpf.a0 240412-23:42:29,741 nipype.workflow INFO: ?????? crashfile: /home/boulakispar/Documents/GitLab/mb_monash/crash-20240412-234227-boulakispar-_bpf0-3ca9a142-ee02-4959-a9af-855aaa3b0d3b.pklz 240412-23:42:29,742 nipype.workflow ERROR: ?????? could not run node: den_workflow.bpf.a0 240412-23:42:29,743 nipype.workflow INFO: ?????? crashfile: /home/boulakispar/Documents/GitLab/mb_monash/crash-20240412-234227-boulakispar-_bpf1-a3bb1da3-42d7-49b4-9ae8-e06988d2acde.pklz 240412-23:42:29,743 nipype.workflow ERROR: ?????? could not run node: den_workflow.bpf.a0 240412-23:42:29,744 nipype.workflow INFO: ?????? crashfile: /home/boulakispar/Documents/GitLab/mb_monash/crash-20240412-234227-boulakispar-_bpf2-6bf1f3af-7735-4fe0-a110-41e411055e90.pklz 240412-23:42:29,745 nipype.workflow ERROR: ?????? could not run node: den_workflow.bpf.a0 240412-23:42:29,746 nipype.workflow INFO: ?????? crashfile: /home/boulakispar/Documents/GitLab/mb_monash/crash-20240412-234227-boulakispar-_bpf3-c04f129a-925a-460f-8f10-6425b1b80c0c.pklz 240412-23:42:29,747 nipype.workflow INFO: ?????? *********************************** It runs correctly until the bandpass step, upon when I get this pathing error that tracks to afni seeing my data as 5d. However, I checked the dimension of my data, and its a standard 4D BOLD img. Can someone tell me where I make the mistake ? P.S. Sometimes I send messages outside of conventional working hours. Please do not feel pressured to respond outside your own work schedule. Kind regards, Boulakis Paradeisios Alexandros, FNRS Aspirant Physiology of Cognition Lab, GIGA CRC In Vivo Imaging All?e du 6 Ao?t 8 4000 Li?ge Belgium -------------- next part -------------- An HTML attachment was scrubbed... URL: From pestilli at utexas.edu Mon Apr 15 18:54:59 2024 From: pestilli at utexas.edu (Franco Pestilli) Date: Mon, 15 Apr 2024 16:54:59 -0600 Subject: [Neuroimaging] INCF Community Survey on Data Sharing and Reuse Message-ID: Dear Friends and Colleagues We are collecting responses on data sharing and reuse in collaboration with the International Neuroinformatics Coordinating Facility. Please answer survey questions and share the survey with your communities. It should take less than 5 minutes to complete: INCF Community Survey on Data Sharing and Reuse This is an introductory Blog Post from INCF [image: image.png] Best regards, *FRANCO PESTILLI*, *Ph.D.* | *Associate Professor* *The University of Texas at Austin* Psychol ogy | College of Liberal Arts Neuroscienc e | College of Natural Sciences (by courtesy) he/him | pestilli at utexas.edu | web | GitHub | Founder and Director brainlife.io Chair Data Working Group i nternationalbraininitiative.org Chair Infrastructure Committee INCF.org Director Wellcome-Kavli Brain Data International Data Governance & Exchange Director Brain Imaging Data Structure (BIDS) Connectivity Project CONFIDENTIALITY NOTICE: This e-mail message, including any attachments, is for the sole use of the intended recipient(s) and may contain confidential and privileged information. Any unauthorized review, use, disclosure or distribution is prohibited. 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