libminc | libminc is the core library and API of the MINC toolkit

by BIC-MNI C Version: Current License: Non-SPDX

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kandi X-RAY | libminc Summary

libminc is a C library. libminc has no bugs, it has no vulnerabilities and it has low support. However libminc has a Non-SPDX License. You can download it from GitHub.

The MINC file format is a highly flexible medical image file format built on the HDF5 generalized data format. The format is simple, self-describing, extensible, portable and N-dimensional, with programming interfaces for both low-level data access and high-level volume manipulation. On top of the libraries is a suite of generic image-file manipulation tools. The format, libraries and tools are designed for use in a medical-imaging research environment : they are simple and powerful and make no attempt to provide a pretty interface to users. Minc tools are hosted in Additional tools are available from the Montreal Neurological Institute (MNI).

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libminc has a low active ecosystem.

It has 16 star(s) with 26 fork(s). There are 16 watchers for this library.

It had no major release in the last 6 months.

There are 20 open issues and 42 have been closed. On average issues are closed in 275 days. There are no pull requests.

It has a neutral sentiment in the developer community.

The latest version of libminc is current.

Quality

libminc has 0 bugs and 0 code smells.

Security

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

libminc code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

libminc has a Non-SPDX License.

Non-SPDX licenses can be open source with a non SPDX compliant license, or non open source licenses, and you need to review them closely before use.

Reuse

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

Installation instructions are not available. Examples and code snippets are available.

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libminc Key Features

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libminc Examples and Code Snippets

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Community Discussions

Trending Discussions on libminc

Convert BrainWeb (.mnc) to MetaImage (.mha) format for TumorSim

QUESTION

Convert BrainWeb (.mnc) to MetaImage (.mha) format for TumorSim

Asked 2019-Oct-17 at 17:05

I want to convert .mnc files from BrainWeb (https://brainweb.bic.mni.mcgill.ca/brainweb/anatomic_normal_20.html) to .mha file format for use in TumorSim (https://www.nitrc.org/projects/tumorsim/).

I have tried converting the file from .mnc to .nii using nibabel and mnc2nii, and then converting the .nii file to the .mha format.

However, this process leads to the file size increasing dramatically (from 56.9 MB .mha to 56.9~227.5 MB .nii depending on output voxel format)

From there, converting the .nii file to the .mha format retains the same file size. The size of .mha files used in TumorSim are around 4.8 MB.

Objective: I want a 1 step solution to convert .mnc files to .mha files Code: ...

ANSWER

Answered 2019-Oct-15 at 14:10

It looks like you might have a permissions or path problem. SimpleITK can't seem to find the file. Try checking the permissions and put in a full path name.

Here's a little test program I wrote to check the MNC IO:

Source https://stackoverflow.com/questions/58370818

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

Vulnerabilities

No vulnerabilities reported

Install libminc

You can download it from GitHub.

Support

This change requires that HDF5 must be installed before MINC can be built. You can obtain HDF5 from, current version is 1.8.11:. You should NOT need to become an HDF5 expert to use MINC 2.0. However, two tools included with HDF5 may prove useful, "h5dump" and "h5ls". h5dump is roughly equivalent to netCDF's ncdump utility. There is no exact netCDF tool analogous to h5ls. h5ls is useful for exploring and extracting bits of the HDF5 hierarchy. This is implemented as a way to control certain behaviors of the library which are not readily available through other means. These variables may be defined either in your environment, or in the .mincrc file in your home directory. The value in the environment should override the one in .mincrc.

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