Comments (10)
My python version is 3.7.
pipenv package:
colorama 0.4.6
cycler 0.11.0
fonttools 4.38.0
imageio 2.31.1
importlib-metadata 6.7.0
joblib 1.3.2
kiwisolver 1.4.4
llvmlite 0.39.1
matplotlib 3.5.3
MedPy 0.4.0
mrqy 0.1
networkx 2.6.3
numba 0.56.4
numpy 1.21.6
packaging 23.1
pandas 1.1.5
Pillow 9.5.0
pip 23.2.1
pydicom 2.4.2
pynndescent 0.5.10
pyparsing 3.1.1
python-dateutil 2.8.2
pytz 2023.3
PyWavelets 1.3.0
scikit-image 0.19.3
scikit-learn 1.0.2
scipy 1.7.3
setuptools 68.0.0
SimpleITK 2.2.1
six 1.16.0
threadpoolctl 3.1.0
tifffile 2021.11.2
tqdm 4.66.1
typing_extensions 4.7.1
umap-learn 0.5.3
wheel 0.41.1
zipp 3.15.0
from mrqy.
i will appreciate your help in this matter!
from mrqy.
@Amir-Reza-Sadri take a look
from mrqy.
Thank you for reaching out.
Based on the tool's message: "The input folder is empty or includes unsupported file formats!", please ensure the following:
- Verify that you're pointing to the correct folder location.
- Ensure that the files within the folder are of supported formats.
If you're still facing issues, please share a sample of your input data or the list of file types you're trying to process. I'd be happy to take a closer look and assist you further.
from mrqy.
I'm having a similar problem on an Ubuntu 20.04 system. I don't get an error about "unsupported files", but MRQy doesn't seem to read the input directory
. If I use as the output folder "Test" which is prepopulated, MRQy runs, but still doesn't read the input directory
I've tried various locations for the input directory, both inside and outside the MRQy-New-Version directory, with no luck. Is there a specific location where the input should be?
from mrqy.
I installed the MRQy-2022.04 and ran it. Now it finds the input directory and creates the output folder in the UserInterface/Data directory, but it returns the error: ValueError: Third dimension must be 3 or 4 - So, don't know what this means
from mrqy.
Any ideas about this?
from mrqy.
Thank you for reaching out and providing the details of the error you encountered. Based on the error message "ValueError: Third dimension must be 3 or 4", it appears that the issue is related to the dimensionality of the image data being processed.
Our tool is designed to work with medical imaging standard formats, which typically do not include color channels as seen in standard RGB or RGBA images. It seems the data you are attempting to process may contain color information, which is not supported by our tool.
To resolve this, please ensure that the images are in a supported medical imaging format (like DICOM, NIfTI, or similar grayscale formats) before passing them to the tool. If you are working with non-medical standard color images, you might need to convert them to grayscale or extract the relevant channels to fit the expected input format for the tool.
If you're indeed working with medical images and still encountering this error, please double-check that the images have not been inadvertently converted to a color format during preprocessing or loading. The tool expects the input data to be in grayscale with a shape that corresponds to (height, width) for 2D images or (slices, height, width) for 3D volumes.
Let me know if you need further assistance or if there are any additional details you can provide.
from mrqy.
These are standard nii images from a Siemens 3T Prisma. No color, standard dicom to nifti conversion. They are BOLD images 4D (slices, height, width, time). Can MRQy could handle 4D?
from mrqy.
see #17
from mrqy.
Related Issues (16)
- sample_size error HOT 3
- ModuleNotFoundError: No module named 'QCF' HOT 9
- Lung MRI project HOT 2
- Installation instructions HOT 1
- DLL load failed while importing _remap - module not found HOT 4
- Error running QC.py on brain scan. HOT 2
- Pipfile Typo HOT 2
- Front-end View Problem Loading Images HOT 4
- 4D datasets HOT 7
- File exists error when saving the thumbnails HOT 2
- Parallel HOT 5
- QC.py npt recognized HOT 22
- DATA HOT 4
- Input Issue HOT 1
- perplexity must be less than n_samples HOT 2
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from mrqy.