Fix installation adding bash shell

cokelaer · May 22, 2023 · caa82c3 · caa82c3
1 parent c2df2ec
commit caa82c3
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Showing 2 changed files with 4 additions and 3 deletions.
diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml
@@ -36,8 +36,8 @@ jobs:
           extra-specs: |
             python=${{ matrix.python }}
 
-
-    - name: conda
+    - name: install package itself
+      shell: bash -l {0}
       run: |
         pip install .
 

diff --git a/README.rst b/README.rst
@@ -39,7 +39,7 @@ Just install this package::
 
     pip install sequana_pacbio_qc
 
-You will need **kraken2** (optional) for the taxonomic analysis.
+You will need **samtools** and  **kraken2** (optional) for the taxonomic analysis.
 
 
 Usage
@@ -77,6 +77,7 @@ Requirements
 This pipelines requires the following executable(s):
 
 - sequana
+- samtools
 - kraken2
 - multiqc