Describe the bug
Old conda version on hasta means microSALT cannot currently be installed on hasta with the installation script in use. The installation gets stuck on "Solving environment" for the following step:
conda install -y -c bioconda -c conda-forge blast=2.12.0 bwa=0.7.17 picard=2.20.3 pigz=2.4 quast=5.0.2 samtools=1.13 spades=3.13.1 trimmomatic=0.39=1 r-base=4.1.1
To Reproducebash update-microsalt-stage.sh master
Expected behavior
All microSALT dependencies are installed in S_microSALT and P_microSALT resp. by running the command above.
Additional context
Change versions?
Use more specific versions (as with trimmomatic above)?
Describe the bug Old conda version on hasta means microSALT cannot currently be installed on hasta with the installation script in use. The installation gets stuck on "Solving environment" for the following step:
conda install -y -c bioconda -c conda-forge blast=2.12.0 bwa=0.7.17 picard=2.20.3 pigz=2.4 quast=5.0.2 samtools=1.13 spades=3.13.1 trimmomatic=0.39=1 r-base=4.1.1
To Reproduce
bash update-microsalt-stage.sh master
Expected behavior All microSALT dependencies are installed in S_microSALT and P_microSALT resp. by running the command above.
Additional context
Change versions?Use more specific versions (as with trimmomatic above)?