Question

Updating Python in my folder on the cluster

0

Entering edit mode

9.9 years ago

stu111392 ▴ 30

Hey Again Folks,

I wanted to use pathoscope2 in our cluster environment but it requires at least python 2.7.3 or higher. Our cluster has python 2.6.6 installed so the program isn't running. And I think they have their reasons to use this version of python.

Is there a possibility that I can install a newer version just in my folder? Or is there another way?

With kind regards,

Julian

Python Cluster Update • 6.1k views

ADD COMMENT • link updated 2.7 years ago by Ram 44k • written 9.9 years ago by stu111392 ▴ 30

1

Entering edit mode

Hi,

Usually, more than one version of Python is installed. Are you sure Python2.6 is the only one available on this cluster ?

ADD REPLY • link 9.9 years ago by Thibault D. ▴ 700

0

Entering edit mode

It seems so. When I type in python and press the tab key for auto completion it is not showing a never version.

ADD REPLY • link 9.9 years ago by stu111392 ▴ 30

0

Entering edit mode

That might happen if quirky naming clashes exist. Try module avail python

ADD REPLY • link 9.9 years ago by Ram 44k

1

Entering edit mode

You might see if they have different python versions available as modules. That's not uncommon on clusters. You can then just module load ... the appropriate version.

ADD REPLY • link 9.9 years ago by Devon Ryan 104k

1

Entering edit mode

Extending Devon's answer, type module avail python and hit return. You should see a list of available versions.

ADD REPLY • link 9.9 years ago by Ram 44k

0

Entering edit mode

Thanks a lot for the fast answers guys. The module avail python and module load ... saved my day.

Have a great day and best wishes from northern Germany :)

ADD REPLY • link updated 2.7 years ago by Ram 44k • written 9.9 years ago by stu111392 ▴ 30

0

Entering edit mode

Glad it helped. Best wishes to you too!

ADD REPLY • link 2.7 years ago by Ram 44k

score 1 · Answer 1 · 2015-01-19

First, please check if 2.6 is the only version of python installed on the cluster (HIGHLY improbable). Extending Thibault's and Devon's answers, type module avail python and hit return. You should see a list of available versions. Then use module load python/2.9 (or an equivalent command) to load the version you need. I should have thought of this earlier.

Either use virtualenv (best option) or install to your home directory as shown here: http://scicomp.stackexchange.com/questions/2987/what-is-the-simplest-way-to-do-a-user-local-install-of-a-python-package