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Sailfish - No <install_dir>/bin folder after installation

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

sailfish
• 1,430 views • link
updated by ATpoint ATpoint • written by GA • GA

1 answer

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

• 0 views • link
written by jared.andrews07 jared.andrews07

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

• 0 views • link
written by GA • GA

Use salmon, it's better in every regard!

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written by ATpoint ATpoint

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