Update base images used (#12)

* update base images * update submodule * update changelog
openproblems-bio · Aug 9, 2024 · 40fb918 · 40fb918
1 parent 77e65bb
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -18,6 +18,8 @@
 
 * Update `task_name` variable to denoising in component scripts (PR #9).
 
+* Update docker containers used in components (PR #12).
+
 ## transfer from openproblems-v2 repository
 
 ### NEW FUNCTIONALITY

diff --git a/common b/common
diff --git a/src/control_methods/no_denoising/config.vsh.yaml b/src/control_methods/no_denoising/config.vsh.yaml
@@ -16,7 +16,7 @@ resources:
 
 engines:
   - type: docker
-    image: ghcr.io/openproblems-bio/base_images/python:1.1.0
+    image: openproblems/base_python:1.0.0
 
 runners:
   - type: executable

diff --git a/src/control_methods/perfect_denoising/config.vsh.yaml b/src/control_methods/perfect_denoising/config.vsh.yaml
@@ -17,7 +17,7 @@ resources:
 
 engines:
   - type: docker
-    image: ghcr.io/openproblems-bio/base_images/python:1.1.0
+    image: openproblems/base_python:1.0.0
 
 runners:
   - type: executable

diff --git a/src/methods/alra/config.vsh.yaml b/src/methods/alra/config.vsh.yaml
@@ -33,7 +33,7 @@ resources:
     path: script.R
 engines:
   - type: docker
-    image: ghcr.io/openproblems-bio/base_images/r:1.1.0
+    image: openproblems/base_r:1.0.0
     setup:
       - type: r
         cran: [ Matrix, rsvd ]

diff --git a/src/methods/knn_smoothing/config.vsh.yaml b/src/methods/knn_smoothing/config.vsh.yaml
@@ -30,7 +30,7 @@ resources:
 
 engines:
   - type: docker
-    image: ghcr.io/openproblems-bio/base_images/python:1.1.0
+    image: openproblems/base_python:1.0.0
     setup:
       - type: python
         packages:

diff --git a/src/methods/magic/config.vsh.yaml b/src/methods/magic/config.vsh.yaml
@@ -53,7 +53,7 @@ resources:
     path: script.py
 engines:
   - type: docker
-    image: ghcr.io/openproblems-bio/base_images/python:1.1.0
+    image: openproblems/base_python:1.0.0
     setup:
       - type: python
         pip: [scprep, magic-impute, scipy, scikit-learn<1.2]

diff --git a/src/methods/saver/config.vsh.yaml b/src/methods/saver/config.vsh.yaml
@@ -23,7 +23,7 @@ resources:
     path: script.R
 engines:
   - type: docker
-    image: ghcr.io/openproblems-bio/base_images/r:1.1.0
+    image: openproblems/base_r:1.0.0
     setup:
       - type: r
         github: mohuangx/SAVER

diff --git a/src/metrics/mse/config.vsh.yaml b/src/metrics/mse/config.vsh.yaml
@@ -18,7 +18,7 @@ resources:
     path: script.py
 engines:
   - type: docker
-    image: ghcr.io/openproblems-bio/base_images/python:1.1.0
+    image: openproblems/base_python:1.0.0
     setup:
       - type: python
         pypi:

diff --git a/src/metrics/poisson/config.vsh.yaml b/src/metrics/poisson/config.vsh.yaml
@@ -18,7 +18,7 @@ resources:
     path: script.py
 engines:
   - type: docker
-    image: ghcr.io/openproblems-bio/base_images/python:1.1.0
+    image: openproblems/base_python:1.0.0
     setup:
       - type: python
         pypi: 

diff --git a/src/process_dataset/config.vsh.yaml b/src/process_dataset/config.vsh.yaml
@@ -25,7 +25,7 @@ resources:
   - path: helper.py
 engines:
   - type: docker
-    image: ghcr.io/openproblems-bio/base_images/python:1.1.0
+    image: openproblems/base_python:1.0.0
     setup:
       - type: python
         packages: