Make atlas ready for python 3.10 (#498)

* no restriction on python version * new version for py10
metagenome-atlas · Mar 3, 2022 · b00face · b00face
1 parent 9f96519
commit b00face
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Showing 5 changed files with 7 additions and 10 deletions.
diff --git a/atlas/workflow/envs/report.yaml b/atlas/workflow/envs/report.yaml
@@ -3,6 +3,5 @@ channels:
     - bioconda
     - defaults
 dependencies:
-    - python=3.8
     - pandas=1.2
     - plotly=5.3
diff --git a/atlas/workflow/envs/required_packages.yaml b/atlas/workflow/envs/required_packages.yaml
@@ -3,7 +3,6 @@ channels:
     - bioconda
     - defaults
 dependencies:
-    - python=3.8
     - bbmap=37 # 38.93 has error in minid
     - pigz
     - bzip2=1.0

diff --git a/atlas/workflow/envs/semibin.yaml b/atlas/workflow/envs/semibin.yaml
@@ -3,5 +3,5 @@ channels:
   - bioconda
   - defaults
 dependencies:
-  - python=3.8
+  - python>=3.8
   - semibin=0.5
diff --git a/atlas/workflow/envs/tree.yaml b/atlas/workflow/envs/tree.yaml
@@ -3,6 +3,5 @@ channels:
     - bioconda
     - defaults
 dependencies:
-    - python=3.6
     - ete3=3.1.1
     - fasttree=2.1.8
diff --git a/atlasenv.yml b/atlasenv.yml
@@ -3,17 +3,17 @@ channels:
   - bioconda
   - defaults
 dependencies:
-  - python=3.8
+  - python>=3.10
   - mamba
   - bbmap=38
-  - snakemake-minimal=6.7
+  - snakemake-minimal=6.15
   - pygments
   - networkx
   - graphviz
-  - pandas=1.2
-  - click=7
-  - ruamel.yaml=0.17
-  - biopython=1.74
+  - pandas>=1.2
+  - click>=7
+  - ruamel.yaml>=0.17
+  - biopython>=1.74
   - cookiecutter
   - xmltodict
   - pathlib2