diff --git a/src/mmaseq/config/species_configs/test.yaml b/src/mmaseq/config/species_configs/test.yaml index f8bea16..6f69ad5 100644 --- a/src/mmaseq/config/species_configs/test.yaml +++ b/src/mmaseq/config/species_configs/test.yaml @@ -78,9 +78,9 @@ lrefinder: database : elmDB reads: True -# kleborate: # MacOS gsl=2.5 -# options: --preset escherichia -# assembler: spades +kleborate: # MacOS gsl=2.5 + options: --preset escherichia + assembler: skesa # meningotype: # MacOS # assembler: spades @@ -89,8 +89,7 @@ spatyper: assembler: spades # seqsero2: # MacOS -# assembler: spades - +# assembler: skesa sistr: assembler: spades diff --git a/src/mmaseq/workflow/envs/seqsero2.yaml b/src/mmaseq/workflow/envs/seqsero2.yaml index c81c0a8..a7c5242 100644 --- a/src/mmaseq/workflow/envs/seqsero2.yaml +++ b/src/mmaseq/workflow/envs/seqsero2.yaml @@ -1,3 +1,3 @@ name: seqsero2 dependencies: - - bioconda::seqsero2=1.3.1 + - bioconda::seqsero2