Leonidus1995
commented
8 months ago 3) Explain what the following BASH commands are doing (explain what is being done in the first line, explain what both executables do, what the options are being used for each executable, and how data is being transferred at each step in the pipeline)?
URL="https://ftp.ensemblgenomes.ebi.ac.uk/pub/bacteria/release-
58/gff3/bacteria_0_collection/escherichia_coli_str_k_12_substr_mg1655_gca_000005845/Escherichia_
coli_str_k_12_substr_mg1655_gca_000005845.ASM584v2.58.gff3.gz"
curl -s $URL | gunzip -c > ecoli_MG1655.gffAnswer: The first line is the path of the file from ftp.ensemblgenomes which is stored in the variable URL. The first of the two executables, "curl -s" retrieves the contents of the file stored in variable URL. The second executable, "gunzip", unzips the gzipped file. In the variable, URL, the file is gzipped which is obvious by the .gz extension at the end of the file.
cbergman
1). What version of Linux is running on the teaching cluster? Answer: Linux teach-sub1 4.18.0-477.15.1.el8_8.x86_64
2). Which directories are in your default $PATH variable when you login to the teaching cluster? Answer: Below are the directories in my default $PATH variable: /usr/local/bin /usr/bin /usr/local/sbin /usr/sbin /usr/local/gacrc/bin /opt/apps/slurm/prod/bin /home/fg69001/.local/bin /home/fg69001/bin