LogoLogo
LogoLogo
  • The Barbara K. Ostrom (1978) Bioinformatics and Computing Facility
  • Computing Resources
    • Active Data Storage
    • Archive Data Storage
    • Luria Cluster
      • FAQs
    • Other Resources
  • Bioinformatics Topics
    • Tools - A Basic Bioinformatics Toolkit
      • Getting more out of Microsoft Excel
      • Bioinformatics Applications of Unix
        • Unix commands applied to bioinformatics
        • Manipulate NGS files using UNIX commands
        • Manipulate alignment files using UNIX commands
      • Alignments and Mappers
      • Relational databases
        • Running Joins on Galaxy
      • Spotfire
    • Tasks - Bioinformatics Methods
      • UCSC Genome Bioinformatics
        • Interacting with the UCSC Genome Browser
        • Obtaining DNA sequence from the UCSC Database
        • Obtaining genomic data from the UCSC database using table browser queries
        • Filtering table browser queries
        • Performing a BLAT search
        • Creating Custom Tracks
        • UCSC Intersection Queries
        • Viewing cross-species alignments
        • Galaxy
          • Intro to Galaxy
          • Galaxy NGS Illumina QC
          • Galaxy NGS Illumina SE Mapping
          • Galaxy SNP Interval Data
        • Editing and annotation gene structures with Argo
      • GeneGO MetaCore
        • GeneGo Introduction
        • Loading Data Into GeneGO
        • Data Management in GeneGO
        • Setting Thresholds and Background Sets
        • Search And Browse Content Tab
        • Workflows and Reports Tab
        • One-click Analysis Tab
        • Building Network for Your Experimental Data
      • Functional Annotation of Gene Lists
      • Multiple Sequence Alignment
        • Clustalw2
      • Phylogenetic analysis
        • Neighbor Joining method in Phylip
      • Microarray data processing with R/Bioconductor
    • Running Jupyter notebooks on luria cluster nodes
  • Data Management
    • Globus
  • Mini Courses
    • Schedule
      • Previous Teaching
    • Introduction to Unix and KI Computational Resources
      • Basic Unix
        • Why Unix?
        • The Unix Tree
        • The Unix Terminal and Shell
        • Anatomy of a Unix Command
        • Basic Unix Commands
        • Output Redirection and Piping
        • Manual Pages
        • Access Rights
        • Unix Text Editors
          • nano
          • vi / vim
          • emacs
        • Shell Scripts
      • Software Installation
        • Module
        • Conda Environment
      • Slurm
    • Introduction to Unix
      • Why Unix?
      • The Unix Filesystem
        • The Unix Tree
        • Network Filesystems
      • The Unix Shell
        • About the Unix Shell
        • Unix Shell Manual Pages
        • Using the Unix Shell
          • Viewing the Unix Tree
          • Traversing the Unix Tree
          • Editing the Unix Tree
          • Searching the Unix Tree
      • Files
        • Viewing File Contents
        • Creating and Editing Files
        • Manipulating Files
        • Symbolic Links
        • File Ownership
          • How Unix File Ownership Works
          • Change File Ownership and Permissions
        • File Transfer (in-progress)
        • File Storage and Compression
      • Getting System Information
      • Writing Scripts
      • Schedule Scripts Using Crontab
    • Advanced Utilization of IGB Computational Resources
      • High Performance Computing Clusters
      • Slurm
        • Checking the Status of Computing Nodes
        • Submitting Jobs / Slurm Scripts
        • Interactive Sessions
      • Package Management
        • The System Package Manager
        • Environment Modules
        • Conda Environments
      • SSH Port Forwarding
        • SSH Port Forwarding Jupyter Notebooks
      • Containerization
        • Docker
          • Docker Installation
          • Running Docker Images
          • Building Docker Images
        • Singularity
          • Differences from Docker
          • Running Images in Singularity
      • Running Nextflow / nf-core Pipelines
    • Python
      • Introduction to Python for Biologists
        • Interactive Python
        • Types
          • Strings
          • Lists
          • Tuples
          • Dictionaries
        • Control Flow
        • Loops
          • For Loops
          • While Loops
        • Control Flows and Loops
        • Storing Programs for Re-use
        • Reading and Writing Files
        • Functions
      • Biopython
        • About Biopython
        • Quick Start
          • Basic Sequence Analyses
          • SeqRecord
          • Sequence IO
          • Exploration of Entrez Databases
        • Example Projects
          • Coronavirus Exploration
          • Translating a eukaryotic FASTA file of CDS entries
        • Further Resources
      • Machine Learning with Python
        • About Machine Learning
        • Hands-On
          • Project Introduction
          • Supervised Approaches
            • The Logistic Regression Model
            • K-Nearest Neighbors
          • Unsupervised Approaches
            • K-Means Clustering
          • Further Resources
      • Data Processing with Python
        • Pandas
          • About Pandas
          • Making DataFrames
          • Inspecting DataFrames
          • Slicing DataFrames
          • Selecting from DataFrames
          • Editing DataFrames
        • Matplotlib
          • About Matplotlib
          • Basic Plotting
          • Advanced Plotting
        • Seaborn
          • About Seaborn
          • Basic Plotting
          • Visualizing Statistics
          • Visualizing Proteomics Data
          • Visualizing RNAseq Data
    • R
      • Intro to R
        • Before We Start
        • Getting to Know R
        • Variables in R
        • Functions in R
        • Data Manipulation
        • Simple Statistics in R
        • Basic Plotting in R
        • Advanced Plotting in R
        • Writing Figures to a File
        • Further Resources
    • Version Control with Git
      • About Version Control
      • Setting up Git
      • Creating a Repository
      • Tracking Changes
        • Exercises
      • Exploring History
        • Exercises
      • Ignoring Things
      • Remotes in Github
      • Collaborating
      • Conflicts
      • Open Science
      • Licensing
      • Citation
      • Hosting
      • Supplemental
Powered by GitBook

MIT Resources

  • https://accessibility.mit.edu

Massachusetts Institute of Technology

On this page

Was this helpful?

Export as PDF
  1. Mini Courses
  2. Introduction to Unix
  3. Files
  4. File Ownership

How Unix File Ownership Works

UNIX is a multi-user environment, how does it maintain security inside of itself?

Every file has an owner and permissions.

There are three levels of ownership:

  • User

  • Group

  • Other

Three levels of permissions:

  • Read

  • Write

  • Execute

How is this useful? Well imagine a lab! There are files that an entire lab should have access to. So put all users in a lab into a lab group, then sharing a file between a lab just means making the lab group the owner of a file. This is already what we do on Luria!

Read File Ownership and Permissions

You can view the ownership and permissions of a file by running ls -l. Here's an example of the output of ls -l:

[asoberan@luria unixclass]$ ls -l
total 40
-rwxr-xr-x 1 asoberan ki-bcc 3845 Apr 28 21:48 arrayAnnot.txt
-rwxr-xr-x 2 asoberan ki-bcc 3134 Apr 28 22:11 arrayDat.txt
-rwxr-xr-x 2 asoberan ki-bcc 3134 Apr 28 22:11 arrayHard.txt
-rwxr-xr-x 1 asoberan ki-bcc 1634 Apr 28 21:48 arraylen.txt
lrwxrwxrwx 1 asoberan ki-bcc   12 Apr 28 22:13 arraySoft.txt -> arrayDat.txt
-rwxr-xr-x 1 asoberan ki-bcc 3128 Apr 28 21:48 beep.txt
-rw-r--r-- 1 asoberan ki-bcc  528 Apr 28 21:48 ex1.sh
-rw-r--r-- 1 asoberan ki-bcc  479 Apr 28 21:48 ex2.sh
-rw-r--r-- 1 asoberan ki-bcc  368 Apr 28 21:48 ex3.sh
-rwxr-xr-- 1 asoberan ki-bcc  340 Apr 28 21:48 test_1.fastq
-rwxr-xr-- 1 asoberan ki-bcc  340 Apr 28 21:48 test_2.fastq

Let's focus on the arrayDat.txt file.

-rwxr-xr-x 2 asoberan ki-bcc 3134 Apr 28 22:11 arrayDat.txt

asoberan ki-bcc describes the ownership of a file. In this case, the user asoberan and the group ki-bcc own the file.

-rwxr-xr-x describes the permissions that the owners of the file have.

The permissions can be broken down into three parts:

  • The user's permissions

    • -rwx

    • The user asoberan has read (r), write (w), and execute (x) permissions for this file.

  • The group's permissions

    • r-x

    • The group ki-bcc has read (r) and execute (x) permissions for this file.

  • Everyone's else's permissions

    • r-x

    • Anyone who isn't asoberan or in the group ki-bcc has read (r) and execute (x) permissions for this file.

To check what group you are in, you can use the groups command:

[asoberan@luria unixclass]$ groups
ki-bcc
PreviousFile OwnershipNextChange File Ownership and Permissions

Last updated 1 year ago

Was this helpful?