How to define a path to the HTSeq python packages
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Entering edit mode
4.4 years ago
jomagrax ▴ 40

Hi everyone!

Im trying to install CAP-miRSeq, wich depends on HTSEQ, at some point Im ask to specify the path to HTSeq python packages, and I donĀ“t know what they mean by that. I have correctly installed and specified HTSeq.

This is the content of the HTSeq directory

    superuser@horus ~/CAP-miRSEQ/build/HTSeq-0.11.2
$ ls -l
total 48
lrwxrwxrwx 1 root root   13 Jan 23 17:35 HTSeq -> python2/HTSeq
drwxr-xr-x 2 root root 4096 Jan  8  2019 HTSeq.egg-info
-rw-rw-r-- 1 root root  553 Jan  8  2019 MANIFEST.in
-rw-r--r-- 1 root root 1006 Jan  8  2019 PKG-INFO
-rw-rw-r-- 1 root root 2974 Jan  8  2019 README.rst
-rw-rw-r-- 1 root root    7 Jan  8  2019 VERSION
drwxr-xr-x 6 root root 4096 Jan 23 17:37 build
drwxr-xr-x 2 root root 4096 Jan 23 17:37 dist
lrwxrwxrwx 1 root root   11 Jan 23 17:35 doc -> python2/doc
drwxr-xr-x 5 root root 4096 Jan  8  2019 python2
drwxr-xr-x 5 root root 4096 Jan  8  2019 python3
lrwxrwxrwx 1 root root   15 Jan 23 17:35 scripts -> python2/scripts
-rw-r--r-- 1 root root   38 Jan  8  2019 setup.cfg
-rw-rw-r-- 1 root root 6405 Jan  8  2019 setup.py
lrwxrwxrwx 1 root root   11 Jan 23 17:35 src -> python2/src
lrwxrwxrwx 1 root root   12 Jan 23 17:35 test -> python2/test

Thankyou all un advance, Jose

RNA-Seq CAP-miRSEQ Python • 717 views
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Entering edit mode

I runned the following command and It fixed

  rm -rf /home/my_user/.local/lib/python2.7/site-packages/HTSeq*
    conda install -c bioconda htseq

It seems like I was mixing and matching between conda and pip

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