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Convert CPAC to Python3 version#403

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Lawreros merged 70 commits intodeployneurodata/m2g:deployfrom cpac-py3neurodata/m2g:cpac-py3Copy head branch name to clipboardApr 4, 2021

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Commits

Commits on Feb 24, 2020

• Dockerfile edit

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Commits on Mar 7, 2020

• Add cpac-necessary libraries to Dockerfile

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• add initial functional pipeline scripts

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• fix typo

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• fix docker typos

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Commits on Mar 13, 2020

• fix cpac directory organization

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• add no-caching on pip installations and apt-get clean

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Commits on Mar 14, 2020

• adapt directorysweeper to handle fmri data, initial fmri pipeline funcitons added

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Commits on Mar 15, 2020

• initial working prototype of m2g_func_worker

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Commits on Mar 18, 2020

• add s3 push capabilities to functional pipeline

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• add input arguments for functional pipeline

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• add info to acquisition input argument

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Commits on Mar 21, 2020

• update m2g_cloud funcitons for new functional pipeline

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• typo fix

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Commits on Mar 22, 2020

• Update m2g_pipeline.yaml

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Commits on Mar 26, 2020

• change script to go up to 10 GB memory per participant

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• Merge branch 'cpac-addition' of https://github.com/neurodata/m2g into cpac-addition

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Commits on Mar 28, 2020

• changes to cpac parameters to allow ec2 instances to function

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• add functional pipeline local batch running

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Commits on Mar 29, 2020

• ec2 test

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Commits on Apr 6, 2020

• remove memory limitation

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Commits on Apr 8, 2020

• add gigabyte control to f-pipeline

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• add n_cpu control

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Commits on Apr 9, 2020

• fix cpac terminal call typo

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Commits on Apr 10, 2020

• derek_changes

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Commits on Apr 14, 2020

• final configuration edits

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Commits on Apr 29, 2020

• add more specific parameters to crawl_bucket

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Commits on May 14, 2020

• Merge branch 'deploy' into cpac-addition

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Commits on Jun 23, 2020

• Priebe edits (#396)

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Commits on Jun 28, 2020

• first pass at converting cpac to py3

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• update dockerfile with new libraries for cpac in python3

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Commits on Jul 7, 2020

• Dockerfile changes for py3

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• Update m2g_pipeline cpac settings file

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• remove keyerror for roi loss

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Commits on Aug 3, 2020

• add python2 back into dockerfile, fix gen_utils bug

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• update gen_utils with new function arguments and errors

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Commits on Aug 10, 2020

• have eddy_correct called in python2 environment

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Commits on Aug 11, 2020

• add virtualenv for eddy_correct

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• fix bug where edgelists start at 2

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Commits on Aug 24, 2020

• add multiprocessing to connectome estimation

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Commits on Oct 19, 2020

• Bug fix (#401)

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Commits on Oct 26, 2020

• add parcellation selection for functional pipeline

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Commits on Oct 27, 2020

• fm2g bug fixes

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• Merge branch 'deploy' into cpac-py3

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Commits on Oct 31, 2020

• fix entrypoint bug from setup.py

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Commits on Nov 2, 2020

• version-lock pybids

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• travis update test

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• Merge branch 'cpac-py3' of https://github.com/neurodata/m2g into cpac-py3

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Commits on Nov 3, 2020

• travis fix

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• travis fix

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• add 4mm parcellation option

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• add aws pull

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• change pip to pip3.6 for travis

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• change aws call to be run in docker container

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• fix typo

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Commits on Nov 4, 2020

• update aws sync

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Commits on Nov 10, 2020

• functional pipeline update

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Commits on Nov 11, 2020

• fix tr-pulling bug

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Commits on Nov 12, 2020

• allow for 1+ functional files

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Commits on Nov 16, 2020

• add memory monitor to functional pipeline

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Commits on Nov 17, 2020

• add options for resource monitoring

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Commits on Nov 25, 2020

• add conversion of connectome to edgelist in func pipeline

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Commits on Nov 27, 2020

• include connectome conversion in functional pipeline

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Commits on Dec 17, 2020

• update dockerfile

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Commits on Jan 25, 2021

• Update README.md

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Commits on Mar 20, 2021

• fix upload bug for multiple functional subjects

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Commits on Mar 21, 2021

• Merge branch 'cpac-py3' of https://github.com/neurodata/m2g into cpac-py3

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• version control fury and hyppo

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Commits on Apr 4, 2021

• update

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• Merge branch 'cpac-py3' of https://github.com/neurodata/m2g into cpac-py3

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