med2image | Converts medical images to more displayable formats | Messaging library

by FNNDSC Python Version: 2.6.6 License: MIT

X-Ray Key Features Code Snippets(2)Community Discussions(6)Vulnerabilities Install Support

kandi X-RAY | med2image Summary

med2image is a Python library typically used in Messaging applications. med2image has no bugs, it has no vulnerabilities, it has build file available, it has a Permissive License and it has low support. You can install using 'pip install med2image' or download it from GitHub, PyPI.

Converts medical images to more displayable formats, e.g. NIfTI to jpg.

Support

Quality

Security

License

Reuse

Support

med2image has a low active ecosystem.

It has 160 star(s) with 53 fork(s). There are 9 watchers for this library.

It had no major release in the last 12 months.

There are 29 open issues and 8 have been closed. On average issues are closed in 343 days. There are 1 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of med2image is 2.6.6

Quality

med2image has no bugs reported.

Security

med2image has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

License

med2image is licensed under the MIT License. This license is Permissive.

Permissive licenses have the least restrictions, and you can use them in most projects.

Reuse

med2image releases are not available. You will need to build from source code and install.

Deployable package is available in PyPI.

Build file is available. You can build the component from source.

Top functions reviewed by kandi - BETA

kandi has reviewed med2image and discovered the below as its top functions. This is intended to give you an instant insight into med2image implemented functionality, and help decide if they suit your requirements.

Run DICOM
Returns the name of the output file
Log a warning message
Saves the slice
Create a directory
Rotate a slice
Invert the slice indices
Save the image
Report a warning message
Prints the error message to the console
The log entry
Set name
Return the value of a dcm field
Sanitize a value
Run NifTI conversion
Report a fatal error
Return the README rst file

Get all kandi verified functions for this library.

med2image Key Features

No Key Features are available at this moment for med2image.

med2image Examples and Code Snippets

Python Script with Cronjob in Docker Container can't find Modules

Python

Lines of Code : 2

License : Strong Copyleft (CC BY-SA 4.0)

Copy

*/10 * * * * /usr/bin/python /script.py > /proc/1/fd/1 2>/proc/1/fd/2

How to install Python 3.7 packages to Docker?

Python

Lines of Code : 25

License : Strong Copyleft (CC BY-SA 4.0)

Copy

nibabel
pydicom
matplotlib
pillow
med2image
pandas
xlsxwriter
numpy
boto
boto3
botocore
oauth2client
urllib3
httplib2
apiclient

FROM alpine
MAINTAINER 
FROM python:3.7

COPY requirements.txt /tmp
WORKDIR /tmp
RUN p

Community Discussions

Trending Discussions on med2image

Python Script with Cronjob in Docker Container can't find Modules

Install python package in docker file

How to install Python 3.7 packages to Docker?

How Do I Change the Axis SimpleITK::ImageSeriesWriter Using?

Bash and Conda: Installing non-conda packages in conda environment with executable bash script

Storing the new format of converted Image

QUESTION

Python Script with Cronjob in Docker Container can't find Modules

Asked 2020-Apr-22 at 06:48

If I run a pythonscript in my container, it runs whithout any problms. But when I run it as a cronjob, it throws an error, that it found no module. Do you have any ideas why?

dockerfile

...

ANSWER

Answered 2020-Apr-17 at 13:53

Try using an absolute path for python in cronpy, e.g.

Source https://stackoverflow.com/questions/61273016

QUESTION

Install python package in docker file

Asked 2019-Dec-25 at 20:47

In my docker file, I want to install med2image python package (https://github.com/FNNDSC/med2image). I use the following code:

...

ANSWER

Answered 2019-Dec-25 at 20:47

Recommended base image

As suggested in my comment, you could write a Dockerfile that looks like:

Source https://stackoverflow.com/questions/50333650

QUESTION

How to install Python 3.7 packages to Docker?

Asked 2019-Apr-22 at 18:29

I am very new to docker. I am building a docker for the first time. I have created a Dockerfile and need to add python packages (specifically to emails). However I am getting an error while building the docker file.

...

ANSWER

Answered 2019-Apr-22 at 17:57

You didn't make a mistake. The cStringIO module doesn't exist anymore. Just remove the email module from your pip install since it is already a part of python base and you should be good to go.

Source https://stackoverflow.com/questions/55798662

QUESTION

How Do I Change the Axis SimpleITK::ImageSeriesWriter Using?

Asked 2019-Jan-15 at 20:07

The SimpleITK::ImageSeriesWriter default to slice given 3D volume along Z-axis and write slices of 2D images in XY view.

How do I change the axis so that the output is in XZ or YZ view?

In another word, if the default Z axis slices are in Axial view, how do I get the slices of Coronal and Sagittal view?

I tried the GitHub:FNNDSC/med2image's output xyz function. But the images array are blindly written, so sometimes the X and Y are transposed, or one of the axis are reversed(flipped). So I feel the need to write my own code to have full control.

...

ANSWER

Answered 2019-Jan-15 at 20:07

You should be able to use the PermuteAxesImageFilter to swap the axes of your volume. Here's the documentation for that filter:

https://itk.org/SimpleITKDoxygen/html/classitk_1_1simple_1_1PermuteAxesImageFilter.html

Or if you prefer a procedural interface (as I do), you can use the PermuteAxes function.

Source https://stackoverflow.com/questions/54160097

QUESTION

Bash and Conda: Installing non-conda packages in conda environment with executable bash script

Asked 2017-Dec-14 at 16:37

I am writing a bash script with the objective of hosting it on a computing cluster. I want the script to create a conda environment for whichever user executes it, so that everyone on our team can quickly set-up the same working environment.

I realize this is a bit overkill for the number of commands necessary but I wanted to practice some bash scripting. Here is my script so far:

...

ANSWER

Answered 2017-Dec-13 at 16:23

The command

Source https://stackoverflow.com/questions/47780634

QUESTION

Storing the new format of converted Image

Asked 2017-Oct-20 at 20:39

I have a folder which is full of nifti images and I am writing my code in shell script. I want to read all images, and then convert each of them to jpg format with med2image library and then store it with the original name. Here is my code

...

ANSWER

Answered 2017-Oct-17 at 21:00

Your code is okay, only need a colon after do, and path for out:

Source https://stackoverflow.com/questions/46797163

Community Discussions, Code Snippets contain sources that include Stack Exchange Network

Vulnerabilities

No vulnerabilities reported

Install med2image

You can install using 'pip install med2image' or download it from GitHub, PyPI.
You can use med2image like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.

Support

For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .

Find more information at: