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New Tuxedo Tool Installer

1. Whats included in this installer ?

This installer script includes the addition/update of the following tools;

  1. hisat2 v 2.1.0 - fast and sensitive alignment program for mapping next-generation sequencing reads
  2. stringtie v 1.3.4d - fast and highly efficient assembler of RNA-Seq alignments into potential transcripts
  3. star v 2.5.4b - Spliced Transcripts Alignment to a Reference

2. Download and check integrity

Download the script from this link https://molbiocloud.com/help/tiki-download_file.php?fileId=72

Check for the integrity of the downloaded file using the following commands (changing to your downloads directory and then checking for the generated sha256sum match)

1. change to the directory where you downloaded the script using the below command;

cd Downloads

1. make sure the downloaded file (newtuxedo) is in there, using the “ls” command;

ls

2. make sure the file is not tampered by executing the following command in your terminal;

sha256sum newtuxedo

Make sure the output of the “sha256sum” matches exactly as the signature given below; If there are mismatches, try downloading the file again or contact us for help;

40232ed02bc12a64eb7b794c2d08113cfcd2c560132414ee9aa30e7d85959347  newtuxedo

3. How to run the update script ?

The setup assumes that you have not made any system level changes. If the install does not behave as expected, probably the system configuration has been changed. If you face any issues after this update, please let us know ASAP, so that we can help you troubleshoot the issue.

Once the downloaded files integrity is confirmed, run the script using the command as shown below.

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chmod 755 newtuxedo
sudo ./newtuxedo

 

After installation is complete, either log out of your machine and then log back in to start using the new updates OR run the following command in your terminal;

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source /etc/profile.d/markcbm.sh

Test if the installed programs work, by executing the command ‘hisat2’ or ‘stringtie’ or ‘STAR’ in the terminal.

4. Issues ?

If you have any issues with running the installer or need any other information regarding this, please do not hesitate to contact us at contact at molbiocloud.com