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hemberg-lab / scRNA.seq.course

Analysis of single cell RNA-seq data course
https://www.singlecellcourse.org
GNU General Public License v3.0
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There is no data/tung folder #186

Closed Nayrouz109 closed 2 years ago

Nayrouz109 commented 2 years ago

Hello,

I am following the manual installation of the course by cloning the Github repo. However, I see in the instructions that the data files are located in the data/tung folder. However, I there is no /data folder.

Thanks,

prete commented 2 years ago

Hi @Nayrouz109 to download the data you need to execture the poststart.sh script and then move the new data folder to it's correct location. For example, open a Terminal and follow these steps:

  1. Clone the repository 
    git clone https://github.com/hemberg-lab/scRNA.seq.course.git
  2. Download the data 
    cd scRNA.seq.course
./poststart.sh
  3. Move the downloaded data folder to the course_files folder 
    mv data course_files/

Now you should be able to run the file courses from within the course_files folder.

Nayrouz109 commented 2 years ago

I keep getting ./poststart.sh: line 4: aws: command not found . So I will need to install AWS CLI ?

prete commented 2 years ago

Yes, as descibred in the docs, if you want to download data files outside of Docker image you will need to install AWS CLI on your computer.

Alternatively, you can browse and download the files individually in you web-browser by visiting this link.

Nayrouz109 commented 2 years ago

Sweet. Thanks much for the clarification !!