Comments (7)
@cardinger Re the rough edges, the lastest version on dev should be pretty smooth. Hoping to release soon.
from clearmap2.
A new version of clearmap with a graphical interface is coming soon. All packages have been bumped. It is currently available for prevew on the "dev" branch with new yml file, including one where python is updated to 3.9.
from clearmap2.
Thanks so much for getting back to me. I successfully installed ClearMap2.1 yesterday. I am trying to use it to initially gather cFOS counts in each brain region in the right hemisphere of 64 brains total which represent 3 different treatment groups. Are there any rough edges with this preview version that you could let me know about?
from clearmap2.
Thanks so much for getting back to me. I successfully installed ClearMap2.1 yesterday. I am trying to use it to initially gather cFOS counts in each brain region in the right hemisphere of 64 brains total which represent 3 different treatment groups. Are there any rough edges with this preview version that you could let me know about?
How did you install ClearMap2.1?
from clearmap2.
pytorch=1.0.0=py3.6_cuda9.0.176_cudnn7.4.1_1, which is called in the .yml file is not available anymore.
(base) foo@bar:~/sw/ClearMap/ClearMap2$ conda env create -f ClearMap_stable.yml Collecting package metadata (repodata.json): done Solving environment: failed ResolvePackageNotFound: - pytorch==1.0.0=py3.6_cuda9.0.176_cudnn7.4.1_1
I had the same error. Can you help me fix it?
from clearmap2.
Thanks so much for getting back to me. I successfully installed ClearMap2.1 yesterday. I am trying to use it to initially gather cFOS counts in each brain region in the right hemisphere of 64 brains total which represent 3 different treatment groups. Are there any rough edges with this preview version that you could let me know about?
How did you install ClearMap2.1?
Apologies for the delay. I followed the instructions that they have for installation in the dev branch but used ./install_gui.sh ClearMapUi39.yml
to run the software with Python 3.9. Did you get it figured out?
from clearmap2.
@cardinger Re the rough edges, the lastest version on dev should be pretty smooth. Hoping to release soon.
It works great! Since late May when I opened this issue, I have used it to get cell counts for 64 brains across 3 different treatment groups with no issues. Thanks so much for all of your help troubleshooting and congrats on the upcoming release!
from clearmap2.
Related Issues (20)
- GUI: Alignment Issue HOT 4
- Export ID numbers for ClearMap2.1? HOT 1
- Numpy import issues with `ClearMap.compile` HOT 1
- Example dataset for CellMap and TubeMap HOT 5
- cannot compile ClearMap modules HOT 8
- .sh install meet some error HOT 7
- conda error while installation HOT 5
- Some problems about Mapping the Fine-Scale Organization and Plasticity of the Brain Vasculature HOT 1
- matplot not available from current channel found while installation HOT 1
- Wobbly Stitcher crashing HOT 4
- Inverse transformation to transform brain images onto atlas space HOT 1
- Missing of wobbly_stitcher_rigid.jpg in folder: /ClearMap/gui/creator/graphics_resources/graphics_resources/
- Traceback error when loading UI
- Stitching Issues
- Transform points error
- Skipping Atlas Registration in TubeMap
- Elastix Error During Registration
- missing ClearMap.Alignment.orientation module in branch vasculature_analysis HOT 2
- modular implementations?
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 clearmap2.