Category Archives: bash

CryoSPARC 2 update on CentOS 7

We have installed previously CryoSPARC 2, but since I’m kind of conservative about, I didn’t update it until I had a feature request from an user. The update is in principle quite easy. You just run cryosparcm update on the … Continue reading

Posted in bash, centos, cryoSPARC, EM, GPU, hardware, software | Leave a comment

Repairing a old OS disk with fsck

I have a Fedora 19 system that has been running as a data proxy without a break for like 4 years already. It’s on another subnet, and I don’t have easy access to it, so it has not been updated … Continue reading

Posted in bash, bits, centos, filesystems, hardware, linux | Leave a comment

Install pyEM on CentOS 7

After a week of silence, I’m back on track. I managed to integrate pyEM onto our systems, and this is my log about. We want it to export cryoSPARC data to relion. Since we don’t start from scratch, my first … Continue reading

Posted in bits, centos, linux, yum, python, EM, bash, modules, cryoSPARC | Leave a comment

Creating a github repository on CentOS 7

I was asked to share my docker. Strange, right? Who’s interested on this sh*t? But OK, let’s share it in a professional way, via github. This is my quick howto. 1.Create a github account and a new repository. Go to … Continue reading

Posted in bash, bits, centos, linux, software | Leave a comment

CryoSPARC 2 install on CentOS 7

There’s a new CryoSPARC available. We had a previous installation, but it can not be updated to this version. You need to ask for a new license. This is a boring post about how it is installed, plus the installation … Continue reading

Posted in bash, centos, cryoSPARC, EM, GPU, software, Uncategorized | 1 Comment

Handling files with python

You know now how to write a multi-platform GUI with Tkinter. I don’t know what your GUI is doing, but it’s good to know a few things about how to log them. For that and for other purposes, we need … Continue reading

Posted in bash, centos, linux, mac, osx, python, Uncategorized | Leave a comment

CCP-EM install on CentOS 7

The CCP-EM software suite is a package containing tools for cryo-EM. You can find it here. I want to install it together with the already existing software. The Brief instructions seem to work fine, provided you have the requirements. This … Continue reading

Posted in bash, bits, EM, modules, python | Leave a comment