Score:0

How can I install VEP (Ensembl Variant Effect Predictor)?

cn flag

I am trying to install VEP through this gist. I do not have conda, so first I am trying to install it into $HOME/miniconda3 as mentioned:

curl -sL https://repo.anaconda.com/miniconda/Miniconda3-py37_4.9.2-Linux-x86_64.sh -o /tmp/miniconda.sh
sh /tmp/miniconda.sh -bfp $HOME/miniconda3

After I run the above commands I am getting this error:

sh: 0: Can't open /tmp/miniconda.sh

If you could help me solve my problem, I would be more than thankful!

Score:1
de flag

Short answer to your question:

Try doing chmod +x /tmp/miniconda.sh then re run sh /tmp/miniconda.sh -bfp $HOME/miniconda3

This command makes the .sh executable. Then rerun your command.

Another way to download and install miniconda (same as conda only for command-line):

If you want to get miniconda, I suggest downloading the latest .sh file from here.

then run chmod +x downloadedfilename.sh

and finally execute it: ./downloadedfilename.sh.

cn flag
Thank you so much , it worked !
Sadra Naddaf avatar
de flag
My pleasure! please select the answer as accepted or give upvotes so others can be sure about it @eleni.ps
mangohost

Post an answer

Most people don’t grasp that asking a lot of questions unlocks learning and improves interpersonal bonding. In Alison’s studies, for example, though people could accurately recall how many questions had been asked in their conversations, they didn’t intuit the link between questions and liking. Across four studies, in which participants were engaged in conversations themselves or read transcripts of others’ conversations, people tended not to realize that question asking would influence—or had influenced—the level of amity between the conversationalists.