install HDF5 and pytables in ubuntu

Question

I am trying to install tables package in Ubuntu 14.04 but sems like it is complaining.

I am trying to install it using PyCharm and its package installer, however seems like it is complaining about HDF5 package.

However, seems like I cannnot find any hdf5 package to install before tables.

Could anyone explain the procedure to follow?

score 68 · Answer 1 · answered Jul 01 '16 at 01:00

68

I found that installing the libhdf5-serial-dev with

  sudo apt-get install libhdf5-serial-dev

did the trick.

answered Jul 01 '16 at 01:00

T.C. Proctor

1

This works on a more bare-bones system. It should be the top answer. – Carson McNeil May 22 '17 at 20:07
You might also need to install `python-dev`, `python3-dev`, or `python3.X-dev` depending on which version of Python you're running (if this hasn't already been done, which on a new system it isn't usually). – Kenny Loveall Mar 18 '19 at 20:50

score 15 · Answer 2 · edited Mar 29 '17 at 05:35

15

Search for the HDF5 library in the ubuntu package repository.

apt-cache search hdf5

The command will show the packages relating to hdf5.

install the relevant package to you.

sudo apt-get install package-name.

mostly you have to install the hdf5-tools, h5utils, python-tables.

edited Mar 29 '17 at 05:35

Peter Pan

answered Feb 05 '16 at 06:32

Hafiz Shehbaz Ali

score 12 · Accepted Answer · answered Jul 30 '15 at 09:15

12

Try to install libhdf5-7 and python-tables via apt

answered Jul 30 '15 at 09:15

1

Apt couldn't find the `libhdf5-7` package on Ubunu 18.04. T.C.'s answer below worked for me though. – Kenny Loveall Mar 18 '19 at 20:52

score 10 · Answer 4 · answered Sep 17 '18 at 05:42

10

To be more precise, do two steps on Ubuntu

1) install hdf5

sudo apt-get install libhdf5-serial-dev

2) install pytables

pip install tables

answered Sep 17 '18 at 05:42

zhengcao

This worked like a charm. Thanks for saving time and energy – Ayan Mitra Feb 13 '20 at 07:49

4 Answers4