docker run

Macatools · Feb 8, 2024 · 2d4dca3 · 2d4dca3
1 parent ab29e2c
commit 2d4dca3
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diff --git a/.github/workflows/build_on_prerelease.yml b/.github/workflows/build_on_prerelease.yml
@@ -96,7 +96,9 @@ jobs:
 
       - name: Running all test pipelines (ANTS cenir macaque petra)
         run: |
-            python segment_skull.py -data /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI/cenir-macaque-petra -out /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI/cenir-macaque-petra/results -soft ANTS_prep_skull -species macaque -sub Magneto -brain_dt T1 T2 -skull_dt T1 petra -deriv -pad
+
+            docker run -i -v /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI:/data macatools/skullto3d:latest
+            segment_skull -data /data/cenir-macaque-petra -out /data/cenir-macaque-petra/results -soft ANTS_prep_skull -species macaque -sub Magneto -brain_dt T1 T2 -skull_dt T1 petra -deriv -pad
 
             ls /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI/cenir-macaque-petra/results
 
@@ -142,7 +144,9 @@ jobs:
 
       - name: Running all test pipelines (ANTS cerimed macaque CT)
         run: |
-            python segment_skull.py -data /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI/cerimed-macaque-ct -out /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI/cerimed-macaque-ct/results -soft ANTS_prep_skull -species macaque -sub Marvin -ses 01 -brain_dt T1 T2 -skull_dt T1 CT -deriv -pad
+
+            docker run -i -v /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI:/data macatools/skullto3d:latest
+            segment_skull  -data /data/cerimed-macaque-ct -out /datat/cerimed-macaque-ct/results -soft ANTS_prep_skull -species macaque -sub Marvin -ses 01 -brain_dt T1 T2 -skull_dt T1 CT -deriv -pad
 
             ls /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI/cerimed-macaque-ct/results
 
@@ -190,7 +194,9 @@ jobs:
       - name: Running all test pipelines (ANTS cerimed macaque CT)
         run: |
 
-            python segment_skull.py -data /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI/cerimed-marmo-petra -out /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI/cerimed-marmo-petra/results -soft ANTS_noseg_skull -species marmo -sub Paolina -ses 01 -brain_dt T1 T2 -skull_dt T1 petra -deriv -pad
+
+            docker run -i -v /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI:/data macatools/skullto3d:latest
+            segment_skull -data /data/cerimed-marmo-petra -out /data/results -soft ANTS_noseg_skull -species marmo -sub Paolina -ses 01 -brain_dt T1 T2 -skull_dt T1 petra -deriv -pad
 
 
             ls /home/runner/work/skullTo3d/skullTo3d/skullTo3d_CI/cerimed-marmo-petra/results

diff --git a/skullTo3d/_version.py b/skullTo3d/_version.py
@@ -1,2 +1,2 @@
 
-__version__ = '0.0.1-rc7'
+__version__ = '0.0.1-rc8'
Original file line number	Diff line number	Diff line change
		@@ -1,2 +1,2 @@

		__version__ = '0.0.1-rc7'
		__version__ = '0.0.1-rc8'