Comments (1)
This error is most likely caused because two versions of Python exist and, by default, conda can be installed with either. Tophat seems to require python 2.7.
The likely solution is to either use Python 2.7 version of conda, or if the Python 3.6 version of conda was already installed, to create a separate namespace pinned to Python 2.7
conda create --name bioinfo python=2.7
then activate the namespace
source activate bioinfo
In this case the new conda environment will be pinned to Python 2.7. Continue with the installation commands:
curl http://data.biostarhandbook.com/install/conda.txt | xargs conda install -y
from biostar-handbook.
Related Issues (20)
- Introduction to taxonomies HOT 1
- "samtools sort" command is not working HOT 2
- UHR HBR typo HOT 1
- Using Windows 10 for the script
- Mamba Installation (xargs: mamba: no such file or directory) HOT 2
- Workflows: Update for install step (src/hisat2.mk, src/fastp.mk, src/salmon.mk) HOT 1
- installation issue HOT 4
- Installation of miniconda HOT 12
- install software: run a realistic analysis HOT 1
- Extremely minor nitpicky issue: Sublime Text 2 is now Sublime Text 4 HOT 1
- Fail to install bioinformatics software
- A typo in the chapter "Classifying whole genome data"
- Missing Apple Silicon (ARM) support in install.sh HOT 7
- Issues in find-variants.sh HOT 3
- Stuck at Doctor.py step for installation process HOT 6
- install issue with quick install command HOT 13
- gunzip hg38.knownGene.gtf.gz not in gzip format HOT 1
- How to summarize differences across annotations?
- Failed to play shell casts in the web book "The Art of Bioinformatics Scripting" HOT 1
- ~/bin/doctor.py HOT 1
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from biostar-handbook.