Comments (4)
Could you try without the leading "/" in the paths ?
T1/S0004.nii,66,Male
T1/S0005.nii,58,Female
T1/S0006.nii,69,Female
T1/S0007.nii,75,Female
T1/S0010.nii,69,Female
T1/S0012.nii,64,Male
T1/S0016.nii,79,Female
T1/S0017.nii,60,Female
from assemblynet.
Thank you for your reply but I found that there are still errors:
cmd= python3 -u make_reports.py -root-dir /data -global-csv /out/global_volumetry_info.csv -age-sex-csv /out/agesex1.csv "/tmp/t1_0.nii.gz" "/data/S0004.nii"
python3 -u make_reports.py -root-dir /data -global-csv /out/global_volumetry_info.csv -age-sex-csv /out/agesex1.csv "/tmp/t1_0.nii.gz" "/data/S0004.nii"
ERROR: column filename not found in filename: /out/agesex1.csv
age=UNKNOWN sex=UNKNOWN
from assemblynet.
Yes, I forgot to say that the first row of the csv must have the columns names.
(I will update the README accordingly)
For example:
#filename,age,sex
T1/S0004.nii,66,Male
T1/S0005.nii,58,Female
T1/S0006.nii,69,Female
T1/S0007.nii,75,Female
T1/S0010.nii,69,Female
T1/S0012.nii,64,Male
T1/S0016.nii,79,Female
T1/S0017.nii,60,Female
If it still does not work, could you tell what your exact command line is ?
( If you call the docker with "-v /some_path/T1:/data", you do not have to put "T1/" in the filenames in the csv.
If you have "T1/" in the filenames in the csv, it means that "T1" is a subdirectory of the directory mounted as /data, and that you are using "-recursive" on the command line)
from assemblynet.
Thank you and the issue has been solved.
from assemblynet.
Related Issues (12)
- Docker image is excessively large HOT 1
- AssemblyNet vs vol2Brain
- Facing error: Error using load_nii_hdr (line 39) HOT 14
- Volbrain other pipelines
- Actual entry HOT 1
- Ranges with Scores HOT 4
- Statistics HOT 1
- problems for docker in ubuntu 20.04 on windows HOT 6
- Atlas for Visualization of results HOT 4
- NVIDIA cuda base image version
- Age-sex csv file
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
π 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. πππ
-
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 β€οΈ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from assemblynet.