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)?
talnor
commented
2 years ago
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=4.1.1To Reproduce
bash update-microsalt-stage.sh masterExpected 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)?