Perl script to run in parellel !
#!/usr/bin/perl use strict; use warnings; use Parallel::ForkManager; use Bio::SeqIO; my ($sequence_data_ref) = parse_genome_files($ARGV[0]); my %genome=%{$sequ...1729 days ago
Bash commandline to install Anaconda !
#The line begins with $ are the commands $ mkdir tmp $ cd tmp/ $ curl -O https://repo.anaconda.com/archive/Anaconda3-2019.03-Linux-x86_64.sh % Total % Re...1598 days ago
Bash command to install Miniconda !
(base) [wsu29@bladeamd-2 tmp]$ wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh --2020-02-01 13:25:25-- https://repo.anaconda.com/miniconda/M...1598 days ago
Bash command to install bwa, samtools, picard !
(base) [wsu29@bladeamd-2 tmp]$ conda install bwa Collecting package metadata (repodata.json): done Solving environment: - The environment is inconsistent, please che...1598 days ago
Bash command to install GATK, Bedtools and SnpEff !
(my_GATK) [wsu29@bladeamd-2 tmp]$ conda install gatk Collecting package metadata (repodata.json): done Solving environment: done ## Package Plan ## environment...1598 days ago
1596 days ago
Install Nucmer on Linux / Ubuntu
jit@jit-HP-Pro-3335-MT:~/Downloads/MitoHunter$ sudo apt install mummer [sudo] password for jit: Reading package lists... Done Building dependency tree Readin...1593 days ago
Install python pip and numpy on Linux / Ubuntu
jit@jit-HP-Pro-3335-MT:~/Downloads/MitoHunter$ sudo apt install python-pip Reading package lists... Done Building dependency tree Reading state information......1593 days ago
Install miniasm in Linux / Ubuntu
jit@jit-HP-Pro-3335-MT:~/Downloads/MitoHunter$ sudo apt install miniasm Reading package lists... Done Building dependency tree Reading state information... Don...1593 days ago
Installing ggplot2 and its dependencies on Ubuntu !
jit@jit-HP-Pro-3335-MT:~/Downloads/MitoHunter/minidot/bin$ sudo R [sudo] password for jit: R version 3.4.4 (2018-03-15) -- "Someone to Lean On" Copyright (C) 2018...1593 days ago