Calculating or verifying md5 checksums for lots of file always a time-consuming process. Here are some notes for how to work with md5 checksum via GNU parallel.

This post was first released at 2019-05-26, and updated at 2021-04-20.

Since PyMOL 2.x released, there were no binary installer avaliable for Windows.

PyMOL Wiki provides the way to install open source PyMOL in Windows under Python 3.x.

This post provided the method to install PyMOL 2.x by conda (Anaconda or Minoconda) in Windows.

This post includes the workthrough of installation, configuration and integration of Hugo and Isso comment server.

Steps:

• Install and configure of Hugo
• Install and configure of Isso comment server in a remote server
• Integrate Isso with Hugo
• Publish to an existing GitHub Page

Environment:

Both local computer and remote server work on Debian bullseye.

BEAGLE-LIB is a high-performance library to accelerate the calculations of Bayesian and Maximun Likelihood phylogenetics analyses. The latest version of beagle-lib was released on Dec 4, 2018.

When compiled for NVidia Tesla V100 on Debian buster 10.9, an error was encountered:

nvcc fatal   : Value 'compute_30' is not defined for option 'gpu-architecture'

Pavian is a interactive browser application for analyzing and visualization metagenomics classification results from classifiers such as Kraken, Centrifuge and MetaPhlAn. Here are a few tips for Pavian to work with large data.

This post introduces how to complie latest R for RStidio, and install RStudio Server in a Debian host.

While installing the R package “hdf5r” version 1.3.3, I encountered the error:

fatal error: hdf5.h: No such file or directory
 #include <hdf5.h>
          ^~~~~~~~
compilation terminated.

My OS is Debian buster/10.6, and the package “libhdf5-dev” has been installed. It looks R cannot find the path of hdf5 header and library files.

Aria2 creats a “.aria2” file for each object it downloading. It can be used to resume the download if necessary.

A couple of days ago, I received an email from the Let’s Encrypt and was told the certificate of my domain will expire soon. This domain has been encrypted by certbot and the automatic renewal worked well at that time. About one month ago, I added it to cloudflare CDN. It may hindered the certificate renew.

So I spent some time to fix the problem.