From 2ee8e57a7e88e160af1df0b1b3595ed14330e5d5 Mon Sep 17 00:00:00 2001 From: Haimasree Date: Mon, 31 May 2021 13:42:07 +0200 Subject: [PATCH 1/2] Fixing model-template --- .../{model.yaml => model-template.yaml} | 13 +++++++------ epidermal_basset/test_subset.txt | 2 ++ 2 files changed, 9 insertions(+), 6 deletions(-) rename epidermal_basset/{model.yaml => model-template.yaml} (93%) create mode 100644 epidermal_basset/test_subset.txt diff --git a/epidermal_basset/model.yaml b/epidermal_basset/model-template.yaml similarity index 93% rename from epidermal_basset/model.yaml rename to epidermal_basset/model-template.yaml index db7482398..1d9024a4e 100644 --- a/epidermal_basset/model.yaml +++ b/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/test_subset.txt b/epidermal_basset/test_subset.txt new file mode 100644 index 000000000..92a5d8460 --- /dev/null +++ b/epidermal_basset/test_subset.txt @@ -0,0 +1,2 @@ +encode-roadmap.basset.clf.testfold-0 +ggr.basset.clf.pretrained.folds.testfold-0 \ No newline at end of file From 6986e75b7aa27f72063ccb892bd9b49a69853daf Mon Sep 17 00:00:00 2001 From: Haimasree Date: Mon, 31 May 2021 13:50:40 +0200 Subject: [PATCH 2/2] changing all model.yamls --- .../model.yaml | 15 ++++++++------- .../model.yaml | 13 +++++++------ .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 13 +++++++------ .../model.yaml | 15 ++++++++------- .../model.yaml | 13 +++++++------ .../model.yaml | 13 +++++++------ .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 13 +++++++------ .../model.yaml | 15 ++++++++------- .../model.yaml | 13 +++++++------ .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- .../model.yaml | 15 ++++++++------- 30 files changed, 234 insertions(+), 204 deletions(-) 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 index 75754e945..7b2f8ade4 100644 --- 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 index b647200e7..28d1e4c98 100644 --- 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 index b8816eff2..7f1ea47a0 100644 --- 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 index 3cd7ea1bd..9242ae9fb 100644 --- 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 index a6c562d30..0ba5240c6 100644 --- 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 index b817a0b0b..35791c2d9 100644 --- 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 index 512718333..c301a2824 100644 --- 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 index d29007df0..f247894a0 100644 --- 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 index ccb13a0e4..5b155d297 100644 --- 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 index 45c0bed7a..717ece3ab 100644 --- 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 index ac3670325..5c2139da1 100644 --- 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 index d831c459d..b320c6b7b 100644 --- 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 index 1874f02ca..a42c70abd 100644 --- 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 index d222ccc1f..45d841a92 100644 --- 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 index d633186b6..4108f8709 100644 --- 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 index 2bfc2ab77..332000a2f 100644 --- 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 index 704c76c27..fdd956ffc 100644 --- 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 diff --git a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-7/model.yaml b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-7/model.yaml index bf1475728..78c422cb4 100644 --- a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-7/model.yaml +++ b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.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/ggr.basset.clf.pretrained.folds.testfold-8/model.yaml b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-8/model.yaml index 9596b4529..d46d53e9f 100644 --- a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-8/model.yaml +++ b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.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/ggr.basset.clf.pretrained.folds.testfold-9/model.yaml b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-9/model.yaml index 5320b5139..9202355fb 100644 --- a/epidermal_basset/models/ggr.basset.clf.pretrained.folds.testfold-9/model.yaml +++ b/epidermal_basset/models/ggr.basset.clf.pretrained.folds.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.regr.pretrained.folds.testfold-0/model.yaml b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-0/model.yaml index c4d0b5525..9f4110e5e 100644 --- a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-0/model.yaml +++ b/epidermal_basset/models/ggr.basset.regr.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.regr.pretrained.folds.testfold-1/model.yaml b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-1/model.yaml index 2c3982a51..503cf30bb 100644 --- a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-1/model.yaml +++ b/epidermal_basset/models/ggr.basset.regr.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.regr.pretrained.folds.testfold-2/model.yaml b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-2/model.yaml index fe193df9e..930c93315 100644 --- a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-2/model.yaml +++ b/epidermal_basset/models/ggr.basset.regr.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.regr.pretrained.folds.testfold-3/model.yaml b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-3/model.yaml index 64f1c2eb2..57ea85575 100644 --- a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-3/model.yaml +++ b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.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/ggr.basset.regr.pretrained.folds.testfold-4/model.yaml b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-4/model.yaml index 04a7ea4a3..eaedd8373 100644 --- a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-4/model.yaml +++ b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-4/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.regr.pretrained.folds.testfold-5/model.yaml b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-5/model.yaml index c1e5307a7..ddc78cba7 100644 --- a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-5/model.yaml +++ b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.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/ggr.basset.regr.pretrained.folds.testfold-6/model.yaml b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-6/model.yaml index 84f9df725..302a53c61 100644 --- a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-6/model.yaml +++ b/epidermal_basset/models/ggr.basset.regr.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 diff --git a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-7/model.yaml b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-7/model.yaml index a40a7ceef..fc24010eb 100644 --- a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-7/model.yaml +++ b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.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/ggr.basset.regr.pretrained.folds.testfold-8/model.yaml b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-8/model.yaml index b2c506fc6..d5e1c6d7d 100644 --- a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-8/model.yaml +++ b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.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/ggr.basset.regr.pretrained.folds.testfold-9/model.yaml b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-9/model.yaml index 61f1abc3d..c4102f6c0 100644 --- a/epidermal_basset/models/ggr.basset.regr.pretrained.folds.testfold-9/model.yaml +++ b/epidermal_basset/models/ggr.basset.regr.pretrained.folds.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)