Merge pull request #187 from DerThorsten/mmsplicefix

Mmsplicefix
kipoi · Jul 29, 2019 · 777280e · 777280e
2 parents 2875cf2 + 36aef28
commit 777280e
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Showing 9 changed files with 10 additions and 7 deletions.
diff --git a/MMSplice/modules/acceptor/dataloader.yaml b/MMSplice/modules/acceptor/dataloader.yaml
@@ -70,7 +70,7 @@ dependencies:
     - python=3.5
   pip:
     - kipoi
-    - mmsplice
+    - mmsplice==0.2.7
 output_schema:
     inputs:
       ss:

diff --git a/MMSplice/modules/acceptor/model.yaml b/MMSplice/modules/acceptor/model.yaml
@@ -18,6 +18,8 @@ info:
     tags:
         - RNA splicing
 dependencies:
+    conda:
+      - pip
     pip:
         - tensorflow>=1.0.0
         - keras>=2.0.4

diff --git a/MMSplice/modules/donor/dataloader.yaml b/MMSplice/modules/donor/dataloader.yaml
@@ -70,7 +70,7 @@ dependencies:
     - python=3.5
   pip:
     - kipoi
-    - mmsplice
+    - mmsplice==0.2.7
 output_schema:
     inputs:
       ss:

diff --git a/MMSplice/modules/exon_3prime/dataloader.yaml b/MMSplice/modules/exon_3prime/dataloader.yaml
@@ -70,7 +70,7 @@ dependencies:
     - python=3.5
   pip:
     - kipoi
-    - mmsplice
+    - mmsplice==0.2.7
 output_schema:
     inputs:
       input_4:

diff --git a/MMSplice/modules/exon_5prime/dataloader.yaml b/MMSplice/modules/exon_5prime/dataloader.yaml
@@ -70,7 +70,7 @@ dependencies:
     - python=3.5
   pip:
     - kipoi
-    - mmsplice
+    - mmsplice==0.2.7
 output_schema:
     inputs:
       input_3:

diff --git a/MMSplice/modules/intron_3prime/dataloader.yaml b/MMSplice/modules/intron_3prime/dataloader.yaml
@@ -70,7 +70,7 @@ dependencies:
     - python=3.5
   pip:
     - kipoi
-    - mmsplice
+    - mmsplice==0.2.7
 output_schema:
     inputs:
       input_5:

diff --git a/MMSplice/modules/intron_5prime/dataloader.yaml b/MMSplice/modules/intron_5prime/dataloader.yaml
@@ -70,7 +70,7 @@ dependencies:
     - python=3.5
   pip:
     - kipoi
-    - mmsplice
+    - mmsplice==0.2.7
 output_schema:
     inputs:
       input_15:

diff --git a/labranchor/dataloader.yaml b/labranchor/dataloader.yaml
@@ -15,7 +15,7 @@ args:
 defined_as: dataloader.py::BranchPointDataset
 dependencies:
   conda:
-  - python
+  - python==3.6
   pip:
   - pysam
   - numpy

diff --git a/labranchor/model.yaml b/labranchor/model.yaml
@@ -9,6 +9,7 @@ default_dataloader: .
 dependencies:
   conda:
   - pip
+  - bioconda::pysam
   pip:
   - tensorflow>=1.0.0
   - keras>=2.0.4
-Original file line number
+Diff line change
@@ Expand Up / @@ -15,7 +15,7 @@ args: @@
     defined_as: dataloader.py::BranchPointDataset
     dependencies:
       conda:
-      - python
+      - python==3.6
       pip:
       - pysam
       - numpy
@@ Expand Down @@