try miniforge

rpetit3 · May 3, 2024 · 8d6596f · 8d6596f
1 parent 883960b
commit 8d6596f
Showing 1 changed file with 3 additions and 3 deletions.
diff --git a/.github/workflows/test-dragonflye.yml b/.github/workflows/test-dragonflye.yml
@@ -26,15 +26,15 @@ jobs:
           path: bactopia-tests
 
       - name: Setup miniconda
-        uses: conda-incubator/setup-miniconda@v2
+        uses: conda-incubator/setup-miniconda@v3
         with:
           activate-environment: dragonflye
           auto-activate-base: false
+          miniforge-version: latest
 
       - name: Setup dragonflye Environment
         run: |
-          conda install -y -c conda-forge -c bioconda mamba 'python=3.8.0'
-          mamba install -y -c conda-forge -c bioconda 'assembly-scan>=0.4.0' any2fasta bwa dnaapler fastp flye 'kmc>=3.1' 'medaka>=1.11.0' miniasm 'nanoq>=0.8.1' perl perl-file-spec perl-findbin 'polypolish>=0.6.0' pilon pigz racon 'rasusa>=1' raven-assembler samtools samclip seqtk porechop
+          conda install -y -c conda-forge -c bioconda 'assembly-scan>=0.4.0' any2fasta bwa dnaapler fastp flye 'kmc>=3.1' 'medaka>=1.11.0' miniasm 'nanoq>=0.8.1' perl perl-file-spec perl-findbin 'polypolish>=0.6.0' pilon pigz racon 'rasusa>=1' raven-assembler samtools samclip seqtk porechop
 
       - name: Environment Information
         run: uname -a && env