how_are_we_stranded_here • Canadian Bioinformatics Helpdesk

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BenB asked 8 months ago

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Hello,
I am trying to install and run the check_strandedness tool, but I am encountering an error when installing it.
First, I downloaded the clone with…

$git clone https://github.com/betsig/how_are_we_stranded_here.git

but when I type the command...
$pip install how_are_we_stranded_here

i receive the following error…
ERROR: Could not find a version that satisfies the requirement how_are_we_stranded_here (from versions: none)
ERROR: No matching distribution found for how_are_we_stranded_here

I have the following packages to meet the requirements of how_are_we_stranded_here
kallisto 0.44.0
python 3.8.3
RSeQC

I am also working within a VirtualBox version of Xubuntu.

Thank you!
Ben

jshleap Staff replied 5 months ago

Not sure if this is still an issue after 3 months, but if you want to install from github (and if there is a setup.py in the tree), you should have done:

python -m pip install git+https://github.com/betsig/how_are_we_stranded_here.git