News update (#755)

* updated the news for the next release * added a potential change to fix createEnv test of azure on mac * added -E flag to run a python script with sudo while preserving the env * updated the azure osx test Co-authored-by: Katarzyna Sikora <[email protected]> Co-authored-by: Leily Rabbani <[email protected]>
maxplanck-ie · Mar 16, 2021 · d12515d · d12515d
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diff --git a/azure-pipelines.yml b/azure-pipelines.yml
@@ -109,7 +109,19 @@ jobs:
       fi
     displayName: Fix OSX permissions
   - template: .azure-pipelines/setup.yml
+  - task: UsePythonVersion@0
+    displayName: 'Use Python 3.7'
+    inputs:
+      versionSpec: 3.7
   - bash: |
       source activate foo
-      sudo snakePipes createEnvs
-    displayName: "createEnvs"
+      sudo -E python .azure-pipelines/testCreateEnv.py -d 1
+    displayName: "createEnvs1"
+  - bash: |
+      source activate foo
+      sudo -E python .azure-pipelines/testCreateEnv.py -d 2
+    displayName: "createEnvs2"
+  - bash: |
+      source activate foo
+      sudo -E python .azure-pipelines/testCreateEnv.py -d 3
+    displayName: "createEnvs3"
diff --git a/docs/content/News.rst b/docs/content/News.rst
@@ -1,6 +1,14 @@
 snakePipes News
 ===============
 
+snakePipes 2.5.0
+----------------
+
+* Added tbb = 2020.2 to dna_mapping, creatIndices and rnae_seq yaml file
+* Added cut and tag parameters to macs2 and bowtei2. The parameters have been used in Kaya-Okur et al. 2019 and can be called by using --cut_n_tag.
+* Updated azure tests. python37 create envs constantly failing due its long run time. This test is now split into smaller chunks. set_macos is removed since it was completely redundant with the set.yaml
+
+
 snakePipes 2.4.3
 ----------------
 
@@ -89,7 +97,7 @@ snakePipes 2.2.0
 * Added STARsolo report for all samples to STARsolo output folder
 * FASTQ1 and FASTQ2 are not localrules anymore due to buggy logging
 * Included optional differential splicing analysis using rmats within mRNA-seq workflow
-* Symlinks in the output path are relative 
+* Symlinks in the output path are relative
 * Increased BBmap version
 * Increased STAR version to 2.7.4a in scRNAseq, noncoding-RNA-seq and mRNA-seq workflows
 * Fixed snakemake version at 5.18.0 due to a bug in DAG handling