Merge pull request #246 from kipoi/fix-ci

Fixed CI
kipoi · May 31, 2021 · 44ece4a · 44ece4a
2 parents c5f4abf + 6986e75
commit 44ece4a
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Showing 32 changed files with 243 additions and 210 deletions.
diff --git a/epidermal_basset/model.yaml → epidermal_basset/model-template.yaml b/epidermal_basset/model.yaml → epidermal_basset/model-template.yaml
@@ -36,12 +36,13 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
 
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array

diff --git a/epidermal_basset/models/encode-roadmap.basset.clf.testfold-0/model.yaml b/epidermal_basset/models/encode-roadmap.basset.clf.testfold-0/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/encode-roadmap.basset.clf.testfold-1/model.yaml b/epidermal_basset/models/encode-roadmap.basset.clf.testfold-1/model.yaml
@@ -36,12 +36,13 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
 
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array

diff --git a/epidermal_basset/models/encode-roadmap.basset.clf.testfold-2/model.yaml b/epidermal_basset/models/encode-roadmap.basset.clf.testfold-2/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/encode-roadmap.basset.clf.testfold-3/model.yaml b/epidermal_basset/models/encode-roadmap.basset.clf.testfold-3/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/encode-roadmap.basset.clf.testfold-4/model.yaml b/epidermal_basset/models/encode-roadmap.basset.clf.testfold-4/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/encode-roadmap.basset.clf.testfold-5/model.yaml b/epidermal_basset/models/encode-roadmap.basset.clf.testfold-5/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/encode-roadmap.basset.clf.testfold-6/model.yaml b/epidermal_basset/models/encode-roadmap.basset.clf.testfold-6/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/encode-roadmap.basset.clf.testfold-7/model.yaml b/epidermal_basset/models/encode-roadmap.basset.clf.testfold-7/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/encode-roadmap.basset.clf.testfold-8/model.yaml b/epidermal_basset/models/encode-roadmap.basset.clf.testfold-8/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/encode-roadmap.basset.clf.testfold-9/model.yaml b/epidermal_basset/models/encode-roadmap.basset.clf.testfold-9/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-0/model.yaml b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-0/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+        - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-1/model.yaml b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-1/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-2/model.yaml b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-2/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-3/model.yaml b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-3/model.yaml
@@ -36,12 +36,13 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8    
 
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array

diff --git a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-4/model.yaml b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-4/model.yaml
@@ -36,13 +36,14 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
-
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8
+
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array
         shape: (1,1000,4)  # array shape of a single sample (omitting the batch dimension)

diff --git a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-5/model.yaml b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-5/model.yaml
@@ -36,12 +36,13 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8    
 
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array

diff --git a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-6/model.yaml b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-6/model.yaml
@@ -36,12 +36,13 @@ info: # General information about the model
     # You can also specify the license in the LICENSE file
 
 dependencies:
-    conda: # install via conda
-      - python=2.7
-      - h5py
-    pip:   # install via pip
-      #- keras>=2.0.4
-      - tensorflow>=1.8
+  conda: # install via conda
+    - python=3.6
+    - h5py=2.10.0
+    - pip=20.2.4
+  pip:   # install via pip
+    - kipoiseq
+    - tensorflow==1.8    
 
 schema:  # Model schema. The schema defintion is essential for kipoi plug-ins to work.
     inputs:  # input = single numpy array