Merge pull request #406 from cov-lineages/pysam_rm

rm the pysam dependency
cov-lineages · Apr 5, 2022 · eac1116 · eac1116
2 parents 8ab6ac9 + 2bffc3d
commit eac1116
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diff --git a/environment.yml b/environment.yml
@@ -10,7 +10,6 @@ dependencies:
   - python>=3.7
   - snakemake-minimal<=6.8.0
   - gofasta
-  - pysam==0.16.0.1
   - ucsc-fatovcf>=426
   - usher>=0.3.2
   - git-lfs

diff --git a/pangolin/utils/config.py b/pangolin/utils/config.py
@@ -76,4 +76,4 @@
 
 # Dependencies
 dependency_list = ["gofasta","minimap2","snakemake"]
-module_list = ["Bio","sklearn","pandas","joblib","pysam","pangoLEARN","constellations"]
+module_list = ["Bio","sklearn","pandas","joblib","pangoLEARN","constellations"]