Python

csc-mlops

Latest version: v0.9.15

PyUp actively tracks 471,271 Python packages for vulnerabilities to keep your Python environments secure.

Scan your dependencies

0.9.15

Removes unnecessary dependencies to allow installation of ray.

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.14...0.9.15

0.9.14

Hotfix for default shm-size bug

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.13...0.9.14

0.9.13

What's Changed
* adds shared memory to cli by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/127


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.12...0.9.13

0.9.12

hotfix for multiprocessing "address already in use" error. use private ipc namespace for docker run

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.11...0.9.12

0.9.11

Hotfix for image loader

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.10...0.9.11

0.9.10

Hotfix for auto-retry xnat download

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.9...0.9.10

0.9.9

What's Changed
* Auto retry by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/126


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.8...0.9.9

0.9.8

What's Changed
* fix for nfiles != nframes by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/125


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.7...0.9.8

0.9.7

What's Changed
* ensure all actions return value by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/124


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.5...0.9.7

0.9.5

What's Changed
* catch failed images by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/123


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.4...0.9.5

0.9.4

Hotfix: restore verify

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.3...0.9.4

0.9.3

What's Changed
* Reduce stdout by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/122


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.0...0.9.3

0.9.2

What's Changed
* Reduce stdout by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/122


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.9.0...0.9.2

0.9.1

Hotfix for async xnat builder

0.9.0

What's Changed
* Async xnat build by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/121


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.12...0.9.0

0.8.12

Hotfix for image_loader exception

0.8.11

What's Changed
* Raises exception when unable to load data by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/119


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.10...0.8.11

0.8.10

What's Changed
* restore gpu to docker run by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/118


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.9...0.8.10

0.8.9

Hotfix for rebuild_docker flag

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.8...0.8.9

0.8.8

What's Changed
* Add rebuild flag by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/117


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.7...0.8.8

0.8.7

What's Changed
* update docker build args by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/116


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.6...0.8.7

0.8.6

What's Changed
* fix test_batch feature by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/115


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.5...0.8.6

0.8.5

What's Changed
* Fetch non image data as action by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/114


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.4...0.8.5

0.8.4

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.3...0.8.4

0.8.3

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.2...0.8.3

0.8.2

What's Changed
* Xnat data checker by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/113


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.8.1...0.8.2

0.8.1

Hotfix for createbuckets service failing during deployment

0.8.0

What's Changed
* Adds install_requires to setup.py and cli_test by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/107
* 108 add windows docker build log by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/109
* Update minio by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/100
* upgrade mlflow to 2.0.1 by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/111
* Adds run name to cli by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/112


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.7.1...0.8.0

0.7.1

What's Changed
* Update tools.py by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/98
* fix for data batch loader


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.7.0...0.7.1

0.7.0

What's Changed
* 86 change the way projects are run by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/92
* Add test batch xnat loader by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/96
* 84 capture stdout when building docker images by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/97


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.6.4...0.7.0

0.6.4

What's Changed
* Image loader compatability by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/91


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.6.3...0.6.4

0.6.3

What's Changed
* Updates to use all actions by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/90


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.6.2...0.6.3

0.6.2

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.6.1...0.6.2

0.6.1

What's Changed
* ignore any xnat samples that raise a TypeError by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/88


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.6.0...0.6.1

0.6.0

What's Changed
* Actions in dataset builder by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/87


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.22...0.6.0

0.5.22

What's Changed
* Update LoadImageXNATd.py by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/85


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.20...0.5.22

0.5.21

What's Changed
* Update LoadImageXNATd.py by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/85


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.20...0.5.21

0.5.20

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.19...0.5.20

updates monai import statement

0.5.19

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.18...0.5.19

0.5.18

What's Changed
* Fixes MLOps project run by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/82


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.17...0.5.18

0.5.17

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.16...0.5.17

Fixes LOG folder bug

0.5.16

What's Changed
* Readme updates by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/79
* Skip git check by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/80


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.15...0.5.16

0.5.15

What's Changed
* Fixes bug causing validate_data to download data by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/78


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.14...0.5.15

0.5.14

What's Changed
* Remove wait for requests resolved related issue by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/76
* Fixed bug: xnat_obj used before it is defined by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/77


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.13...0.5.14

0.5.13

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.12...0.5.13

Fixes version number issue

0.5.12

What's Changed
* add pause to allow xnat request to complete by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/75


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.10...0.5.11

0.5.10

What's Changed
* Changes requests verify to config parameter by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/74


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.9...0.5.10

0.5.9

Adds XNAT data validation to handle cases where the data is not present for a particular subject and removes the subject from the dataset.

What's Changed
* Error handling by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/73

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.8...0.5.9

0.5.8

What's Changed
* Get SSL from env by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/72


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.7...0.5.8

0.5.7

What's Changed
* adds new csc-mlops logo by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/69
* Adds additional logging to XNAT loader features by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/70
* log xnat label instead of internal accession number by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/71


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.6...0.5.7

0.5.6

What's Changed
* adds bind mount locations for db and artifact storage by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/67
* adds bind mount folders for github actions db and artifact storage by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/68

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.1...0.5.6

0.5.1

Fixes bug in pypi release action.

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.5.0...0.5.1

0.5.0

First release packaged for PyPI

What's Changed
* Adds pypi release feature by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/65


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.4...0.5.0

0.4

Major new feature in this release is XNAT integration, the LoadImageXNATd transform, see the README for details on how to use this feature. This transform is used in the same way as the standard LoadImaged MONAI transform but will pull the desired images from a networked XNAT server and load them into memory rather than requiring a path to a file location.

What's Changed
* create workflows for commit and PR tests by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/52
* add torchserve requirements to server by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/53
* Block running uncommited changes by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/58
* Fixes release tests and adds python 3.10 to tests by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/59
* remove project file if it exists before rebuilding it by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/61
* Adds xnat integration by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/63

0.4.0

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.3.1...0.4

0.3.1

Fixes some issues with live deployment server and makes entire deployment process more robust.

What's Changed
* Develop by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/43
* Improvements to s3 connection by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/45
* address issues with github actions by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/47
* Relink s3 by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/48
* Develop -> Master by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/46
* merge master into develop by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/49
* Add citation file to develop branch by alexandertdeng in https://github.com/GSTT-CSC/MLOps/pull/40
* Develop by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/50


**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.3.0...0.3.1

0.3

New Contributors
* alexandertdeng made their first contribution in https://github.com/GSTT-CSC/MLOps/pull/34
* saurabh042 made their first contribution in https://github.com/GSTT-CSC/MLOps/pull/32

**Full Changelog**: https://github.com/GSTT-CSC/MLOps/compare/0.2...0.3.0

0.3.0

MLOps Release 0.3.0 is now live!

This release focuses on usability and should help streamline usage for developers. The datatoolkit tool is now also available, please use this to register your datasets. Changelog is below in case anyone wants to check the individual PRs that make up this release.

What's Changed
* datatoolkit by Bioin4matics in https://github.com/GSTT-CSC/MLOps/pull/27
* Feature/unit tests by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/29
* Added CITATION.cff by alexandertdeng in https://github.com/GSTT-CSC/MLOps/pull/34
* replace print statements with logger 30 by saurabh042 in https://github.com/GSTT-CSC/MLOps/pull/32
* Resolve workflow issues by laurencejackson in https://github.com/GSTT-CSC/MLOps/pull/38

0.2

Addresses bugs and improves performance