Sailfish - No <install_dir>/bin folder after installation

Question

[GA]

Hello, I followed the steps listed below to install sailfish according to this instructions https://sailfish.readthedocs.io/en/master/building.html#installation. I know I need to add the <install_dir>/bin to my PATH after the installation. However, I don't see the bin folder in my <path_to_sailfish> folder. Can someone please tell me if I'm missing a step in my installation process or what should I do? I'm installing on Ubuntu 20.04.

STEPS TAKEN:

1. wget https://github.com/kingsfordgroup/sailfish/archive/refs/tags/v0.10.0.zip
2. unzip v0.10.0.zip
3. cd sailfish-0.10.0
4. mkdir build
5. cd build
6. cmake -DFETCH_BOOST=TRUE ..
7. make
8. make install

THESE ARE THE FOLDERS AND FILES I SEE ON MY SAILFISH TOP FOLDER:

• build/
• ChangeLog.md
• cmake/
• CMakeLists.txt
• doc/
• Dummy_File
• external/
• include/
• LICENSE
• README.md
• sample_data/
• sample_data.tgz
• scripts/
• src/
• tests/

I appreciate any help you can provide!!

Gimena

Answer 1

[jared.andrews07]

Any reason you aren't using salmon instead? It has a number of improvements over sailfish while providing many of the same benefits.

It's also a very simple conda install: conda install -c bioconda salmon

If you're set on using sailfish, it can also be installed via conda: conda install -c bioconda sailfish

[GA]

Thank you for your recommendations!! I didn't know sailfish was available through conda. Thank you for your help!

[ATpoint]

Use salmon, it's better in every regard!