Search results

Create the page "File system" on this wiki! See also the search results found.

• Technical and Specialized Skills
  * Remote login, file transfer, etc.: [[Secure Shell|SSH]] (+scp), [[Rsync (command)|rsync]], FTP * [http://www.sagemath.org/ Sage] (System for Algebra and Geometry Experimentation)
  6 KB (773 words) - 11:35, 5 February 2020
• Bash
  ...xt output. Because of the nature of Linux, some functions of the operating system have to be implemented as shell builtins. The most notable example is cd, w |'''$ ~2T''' || All Present Users on system from "<tt>/etc/passwd</tt>"
  34 KB (5,354 words) - 19:04, 9 May 2023
• Shebang
  ...]) causing Unix-like operating systems to execute the commands in the text file using a specified interpreter (program) when executed. ...require an interpreter program start with other magic combinations. (See [[File format]] for more details of magic numbers.)
  5 KB (755 words) - 23:20, 25 May 2006
• GeSHi/Java
  System.out.println("\tUnrecognized command " + line); else System.out.println("\tUnrecognized command " + line);
  6 KB (738 words) - 17:32, 17 December 2005
• Database Systems (academic course)
  ...ctured and stored asking for more powerful tools than the use of files and file systems. On the other hand database systems offer basic mechanisms to struc Several exercises using different database system are given during the course period.
  2 KB (273 words) - 23:35, 25 May 2006
• Bayesian Phylogenetic Analysis
  The [[NEXUS file format|NEXUS files needed]] in this tutorial are the following: ...where you can enter commands. The next set of commands will load the data file, specify <tt>outgroup</tt>, request that the program should not prompt you
  28 KB (4,371 words) - 03:28, 14 April 2008
• NJplot
  ...Perriere1996">Perrière G, Gouy M (1996). "WWW-Query: An on-line retrieval system for biological sequence banks". ''Biochimie'' '''78''':364-369. {{doi|10.10 ''note: taken from the <tt>njplot.help</tt> file.''
  4 KB (587 words) - 02:42, 13 July 2012
• LaTeX
  .../sub>X''', written as '''LaTeX''' in plain text, is a document preparation system for the [[TeX]] typesetting program. \usepackage{epsfig} % place at top of .tex file
  13 KB (1,882 words) - 01:17, 24 June 2008
• AWS/DevOps
  ...mate maintenance activities without having to manage a separate scheduling system. With regard to information security, events can provide notifications of c ...cloudwatch-agent/bin/amazon-cloudwatch-agent-ctl -a fetch-config -m ec2 -c file:cloudwatchconfig.cfg -s
  28 KB (3,792 words) - 17:56, 26 February 2021
• Linux
  '''Linux''' is a computer operating system and its kernel. It is one of the most prominent examples of free software a The kernel is the core piece of the Linux operating system.
  7 KB (1,028 words) - 20:06, 24 October 2014
• Python
  ...&mdash; a Python library for symbolic mathematics (aka a computer algebra system (CAS)) ...org/ PyMedia] &mdash; module for wav, mp3, ogg, avi, divx, dvd, cdda, etc. file manipulations.
  11 KB (1,639 words) - 21:59, 9 September 2022
• MySQL
  ...ithreaded, multi-user, SQL (Structured Query Language) Database Management System (DBMS). $ file $(which mysql_secure_installation)
  15 KB (2,259 words) - 00:21, 10 February 2021
• CHARMm
  ...ual name of the program (or script which runs the program) on the computer system being used. ; <tt>filename.inp</tt> : A text file which contains the CHARMM commands. It starts by loading the molecular topo
  4 KB (546 words) - 00:49, 3 April 2009
• Agrep
  ...ommand Line Tools|command line tool]] for use with the [[Linux]] operating system. ...ken directly from the agrep [ftp://ftp.cs.arizona.edu/agrep/README README] file.''
  13 KB (1,944 words) - 06:33, 20 April 2012
• Sudo
  ...to run programs in the guise of another user (normally in the guise of the system's [[superuser]]). It is currently maintained by Todd C. Miller. ...risk of any unattended terminals. Once authentication has taken place, the system updates a [[timestamp]] and the user may then use <code>sudo</code> without
  3 KB (472 words) - 02:01, 26 April 2007
• Miscellaneous commands
  ...[[ISO Images|ISO]] files in Linux. Linux users can easily convert the NRG file using the [[dd]] command in the following way: ==Selecting random lines from a file==
  20 KB (3,106 words) - 23:38, 10 September 2021
• Sed/scripts
  == File spacing == * double space a file
  30 KB (4,929 words) - 22:47, 21 August 2019
• Coreutils
  ; Formatting file contents : <code>fmt pr fold</code> ; Special file types : <code>ln mkdir rmdir mkfifo mknod</code>
  9 KB (1,324 words) - 23:35, 6 February 2013
• Named pipe
  ...longer being used. Processes generally attach to the named pipe (usually a file) to perform inter-process communication. cat file > pipe
  1 KB (218 words) - 06:54, 19 August 2006
• PyMOL
  '''PyMOL''' is an open-source, user-sponsored, molecular visualization system created by Warren Lyford DeLano and commercialized by DeLano Scientific LLC *[[Protein Data Bank (file format)]]
  1 KB (158 words) - 04:18, 24 April 2007
• Netpbm program directory
  ;jpegtopnm : convert JFIF/JPEG/EXIF file to Netpbm format ;bmptopnm : convert Windows or OS/2 Bitmap file to PPM or PGM
  17 KB (2,636 words) - 06:49, 1 September 2006
• LAMP on Mandriva
  ...that you do '''not''' set your MySQL root password to be the same as your system root password!''). ...de> file has been removed, this is now set in the <code>/etc/my.cnf</code> file.
  7 KB (1,074 words) - 01:52, 3 May 2007
• Expect (command)
  # Exit the telnet session, and wait for a special end-of-file character. # Exit the ftp session, and wait for a special end-of-file character.
  7 KB (1,064 words) - 03:05, 13 April 2008
• Secure Shell
  * Step 3: Set directory/file permissions (if not already set): ...r remote server without entering a password. This is useful for automating file transfers. However, it ''must'' be used with care. If not executed properly
  10 KB (1,480 words) - 18:24, 6 February 2024
• Urpmi
  urpmf <file> # Find package that contains a file urpmi --auto-select # Update your system
  3 KB (499 words) - 05:50, 17 July 2009
• Linux directory structure
  ...system as they depend on whether certain subsystems, such as the X Window System, are installed. |Essential [[device file|'''dev'''ices]] (e.g., [[:/dev/null]])
  7 KB (974 words) - 20:12, 19 April 2022
• Shell colour codes
  ...de>.dir_colors</code> in your <code>$HOME</code> directory to override the system defaults. Below are the colour init strings for the basic file types. A colour init string consists of one or more of the following numeri
  1 KB (236 words) - 02:08, 9 October 2006
• Make
  ...make all the files and other tools involved in generating the final output file (or files). ...nk]] file and would only want the [[fasta]] sequence of the genome. If the file is named "foo.gbk", then one could use gmake to get the fasta sequence: exe
  6 KB (1,015 words) - 03:38, 1 October 2009
• TAB file format
  A '''tab file''' is file format proposed by Rasmus Wernersson for annotating biological sequences.<r ...st/bioperl/Bio/SeqIO/tab.pm Bio::SeqIO::tab]). It is a nearly raw sequence file input/output stream.
  11 KB (1,628 words) - 01:05, 13 July 2012
• PostScript
  ;pstops : shuffle pages in a PostScript file (see manpage for details) ...t.html ''First Guide to PostScript''] is an introduction to the PostScript system.
  3 KB (469 words) - 01:21, 8 February 2009
• Rdate
  ...and time from a host or hosts on the network and optionally set the local system time. ; -s : Set the local system time from the host; must be specified by root.
  783 bytes (126 words) - 02:08, 26 April 2007
• Findutils
  ...n with other programs to provide modular and powerful directory search and file locating capabilities to other commands. * <tt>updatedb</tt> - update a file name database
  10 KB (1,695 words) - 23:28, 21 May 2015
• Bioinformatics resource list
  ; R : A statistical computation and graphics system. (''License: GNU'') ; openbabel : A free, open-source version of the Babel chemistry file translation program. (''License: GPL'')
  13 KB (1,598 words) - 06:08, 20 May 2008
• Mt
  $ tar --index-file=foo.log -jcvf /dev/nst0 /data /home * Or, list files to exclude in a file (one filename per line):
  6 KB (1,008 words) - 08:58, 17 February 2016
• ISO Images
  This results in a file called <code>cd.iso</code> in folder <code>/tmp</code> which contains all t ...s-NT or Windows-95 machines). The <code>-r</code> is for the directory and file permissions, user/group IDs, etc.
  11 KB (1,842 words) - 14:44, 14 July 2014
• Ptx
  ...x Command Line Tools|command-line]] utility to produce a permuted index of file contents similar to a '''[[KWIC]]''' (keywords in their context). It is par -G, --traditional behave more like System V `ptx'
  15 KB (2,341 words) - 02:00, 26 April 2007
• Dbacl
  Suppose a file document.txt contains English text lines interspersed with noise lines. To ...and filled with appropriate sample emails. A [[Crontab (command)|crontab]] file can be used to learn the three categories once a day, e.g.
  7 KB (1,190 words) - 08:53, 22 February 2007
• Dd (command)
  ; '''if'''=''file'' : Input File: Read from ''file'' instead from [[Redirection (Linux)|standard input]]. ; '''of'''=''file'' : Output File: Write to ''file'' instead to standard output. See also the keyword '''notrunc'''.
  10 KB (1,656 words) - 01:46, 7 May 2018
• Shred
  ...o hide its contents, and optionally delete it. It overwrites the specified FILE(s) repeatedly, in order to make it harder for even very expensive hardware * <tt>shred [OPTIONS] FILE [...]</tt>
  4 KB (623 words) - 02:39, 13 February 2007
• Linux HDD
  ...machine, you must add the appropriate line to your <code>/etc/fstab</code> file. Something ''like'' the following should work for most uses: Then mount it using the information in your <code>/etc/fstab</code> file:
  7 KB (1,275 words) - 03:45, 1 December 2015
• Pax
  ...read and write file archives and copy directory hierarchies. A POSIX File System Archiver. It supports the two most common forms of standard Unix archive (b ...<code>a.pax</code> which are owned by root with group bin and preserve all file permissions:
  1 KB (251 words) - 04:20, 6 July 2012
• Update timezone files for earlier Daylight Savings Time
  ...load the [ftp://elsie.nci.nih.gov/pub/ patch from here]. You will need the file <code>tzdata2007c.tar.gz</code> (this may have changed since writing this). ...that tell us we have successfully updated our <code>/etc/localtime</code> file.
  5 KB (705 words) - 01:44, 14 May 2015
• Flash motherboard BIOS
  ...dos.org FreeDOS] as an example. FreeDOS is a free DOS-compatible operating system. ...ents in a human-readable format. This table contains a description of the system's hardware components, as well as other useful pieces of information such a
  3 KB (497 words) - 21:04, 11 March 2007
• Iftab
  '''iftab''' - static information about the network interfaces. The file <code>/etc/iftab</code> contains descriptive information about the various ...electors allow <tt>ifrename</tt> to identify each network interface on the system. If a network interface matches all descriptors of a mapping, <tt>ifrename<
  6 KB (856 words) - 17:23, 3 January 2014
• Crontab
  ...eads a series of commands from [[standard input]] and collects them into a file also known as a "crontab" which is later read and whose instructions are ca export EDITOR=vi # to specify a editor to open crontab file.
  8 KB (1,304 words) - 08:49, 18 September 2021
• Linux kernel
  The '''kernel''' is the core piece of the [[Linux]] operating system. * File management
  6 KB (897 words) - 10:20, 17 November 2014
• RPM Package Manager
  ...ly Red Hat Package Manager, abbreviated '''RPM''') is a package management system. NOTE: RPM file names normally have the following format:
  8 KB (1,064 words) - 22:36, 19 April 2023
• Recovery Is Possible
  ...the author takes time to compile and quickly test the build. The operating system's X11-capable version does not require X11 to be started at bootup, and can ...leted files, by ignoring the filesystem and checking disk blocks for known file types
  3 KB (481 words) - 05:17, 2 April 2007
• Fstab
  ...they are to be used or otherwise integrated into the overall system's file system. The following is an example of a fstab file on a Red Hat [[Linux]] system:
  6 KB (838 words) - 01:45, 3 April 2007
• Common Unix Printing System
  The '''Common Unix Printing System''' ('''CUPS''') is a modular printing system for Unix-like computer operating systems that allows a computer to act as a For example, a generic PPD file for all models of HP Color LaserJet contains:
  6 KB (795 words) - 22:59, 23 January 2008
• List of GNU packages
  ...by the Free Software Foundation for GNU, a free Unix-compatible operating system. Many of these software packages are today included as part of typical GNU/ ==Base system==
  8 KB (1,101 words) - 05:31, 4 April 2007
• GRUB
  ...,1</code> refers to hard drive 1 partition 2 where, for an example, a file system could be installed. You'll need to change those numbers if yours differs.)
  2 KB (303 words) - 23:30, 30 May 2012
• GNU General Public License
  operating system on which the executable runs, unless that component integrity of the free software distribution system, which is
  18 KB (2,945 words) - 22:54, 4 April 2007
• CDfs
  '''CDfs''' is a virtual Linux file system that provides access to individual data and audio tracks on compact discs. *Red Book audio: Appears as a CDA file; reading from it will start the media player reading from the tracks. The C
  3 KB (492 words) - 02:50, 21 April 2007
• TLSMD
  ...[[Christoph Champ|Champ PC]], Merritt EA (2010). "[https://docs.google.com/file/d/0B7cFvC52gEb9MTRmNDQyNmYtZDVhNS00OTViLTkxZGItODk3ZmU2ZjdjYzM5/edit Valida ...is section will cover the install of pymmlib, including tlsmd, on a 64-bit system running [[Mandriva Linux]] 2007.1. However, most of it should work for 32-b
  15 KB (2,303 words) - 00:36, 13 July 2012
• List of EMBOSS programs
  ==Acd file utilities== ;acdtable : Creates an HTML table from an ACD file
  21 KB (2,762 words) - 01:04, 10 July 2012
• List of SEALS programs
  ...static web documents may not agree with the documentation produced on your system.'' ==simple fasta file manipulation==
  10 KB (1,464 words) - 06:54, 4 May 2007
• Tar
  In computing, '''tar''' (derived from '''t'''ape '''ar'''chive) is both a file format (in the form of a type of archive bitstream) and the name of the pro % tar --index-file=foo.log -jcvf /dev/nst0 /data /home
  6 KB (968 words) - 05:29, 20 November 2013
• GMOD
  ...(2002). "The generic genome browser: a building block for a model organism system database". ''Genome Res, 12(10) 1599-1610''. {{doi|10.1101/gr.403602}} PMID ...DME-gff-files.html About GFF files] &mdash; shows how to convert different file formats.
  2 KB (312 words) - 08:41, 18 May 2008
• Subversion
  '''Subversion''' ('''SVN''') is a version control system. It allows users to keep track of changes made over time to any type of ele Most subcommands take file and/or directory arguments, recursing on the directories. If no arguments
  3 KB (512 words) - 22:04, 22 August 2018
• Git
  ...tem. I not only use it for software management, I also use it as my backup system for any of my text files. ...<code>git log</code> for a specific function in a specific (e.g., Python) file:
  4 KB (633 words) - 00:38, 19 February 2021
• Python/NumPy
  * Solving a linear system: *write a to specified file (fid), in either binary or ascii format depending on options
  10 KB (1,665 words) - 23:53, 30 March 2017
• Ext3grep
  ...rlo17/howto/undelete_ext3.html HOWTO recover deleted files on an ext3 file system]
  638 bytes (105 words) - 07:36, 9 May 2008
• Umask
  ...ntrols which of the file permissions will not be set for any newly created file. The user file-creation mask is set to mode. If mode begins with a digit, it is interprete
  2 KB (256 words) - 04:16, 14 April 2008
• Etckeeper
  ...ommit changes made to <code>/etc</code> during package upgrades. It tracks file metadata that revison control systems do not normally support, but that is ...version) &mdash; a Ruby-based management and automation tool for [[Linux]] system administration.
  2 KB (232 words) - 05:56, 8 July 2013
• XenServer
  ;VHD : actual Virtual HDD file ends with this extension ;image : A collection of files for a specific operating system (OS) that you use to create or rebuild a server. You can create custom imag
  3 KB (441 words) - 23:12, 1 March 2015
• Rackspace API
  ...swap partition enabled by default. The "<code>Disk</code>" column is your system disk/partition and the "<code>Ephemeral</code>" column is your data disk/pa :''Note: Cloud Files is an "Object Storage" application level system that uses an API to interact with it. For an introduction to Object Storage
  38 KB (4,754 words) - 17:30, 19 September 2019
• Linux swap space
  ==Creating a swap file== *Create the file to be used for swap:
  3 KB (526 words) - 02:16, 14 January 2016
• Sar (sysstat)
  ...ort) is a Solaris-derived system monitor command used to report on various system loads, including CPU activity, memory/paging, device load, network, etc. Li The sysstat package contains the following system performance tools:
  6 KB (711 words) - 05:04, 28 July 2014
• Di (command)
  ...p quotas, so that the user sees the space available for their use, not the system wide disk space. [file [...]]
  15 KB (2,072 words) - 19:07, 22 November 2013
• Cryptsetup
  *Create an encrypted file system on a given partition:
  1 KB (184 words) - 19:06, 5 May 2014
• Network Time Protocol
  * [Optional] Synchronize the system clock with <code>0.pool.ntp.org</code> server: ...r update the <code>restrict</code> line in your <code>/etc/ntp.conf</code> file:
  4 KB (668 words) - 21:38, 9 April 2018
• CentOS
  '''CentOS''' (abbreviated from '''Community Enterprise Operating System''') is a [[Linux]] distribution that attempts to provide a free, enterprise ...INPUT ...`</code>) or create/edit the <code>/etc/sysconfig/iptables</code> file to look something like the following (very basic with ports 22 and 80 open)
  6 KB (850 words) - 00:00, 27 August 2016
• Rkhunter
  * executables with anomalous file permissions; * hidden files in system directories; and
  2 KB (298 words) - 21:38, 10 September 2021
• Xm (xen)
  ;<code>xm save</code> : Similar to suspend except with user definable state file ;<code>xm sysrq</code> : Sends system requests per domain
  32 KB (5,154 words) - 10:30, 20 September 2014
• Sftp
  ...n of the [[SSH|Secure Shell protocol]] (SSH) version 2.0 to provide secure file transfer capability, but is also intended to be usable with other protocols ...to access a specified directory (and only that directory, no other on the system).
  2 KB (415 words) - 11:40, 20 September 2014
• Linux log files
  :Alternative logs information from update-alternatives into this log file. :Access Log file &mdash; records incoming requests and all requests processed by Apache (e.g
  5 KB (718 words) - 00:58, 12 December 2018
• Ansible
  ...ON and standard output and can be written in any programming language. The system uses YAML to express reusable descriptions of systems. * Create your own custom Ansible configuration file:
  12 KB (1,304 words) - 17:04, 10 April 2022
• Strace
  ...monitor interactions between processes and the Linux kernel, which include system calls, signal deliveries, and changes of process state. The operation of <c ...ode>strace(1)</code> may reveal that the program is attempting to access a file which does not exist or cannot be read.
  6 KB (855 words) - 21:12, 18 February 2016
• Crudini
  * Create a test conf file: $ echo -e 'one\ntwo' | awk '{ print } $1 == "[bar]" && c == 0 { c = 1; system("cat") }' foobar.conf
  948 bytes (147 words) - 17:53, 27 October 2015
• Sysctl
  ...ystem, reading its contents, parsing them and closing the file. The sysctl system call does exist on Linux, but does not have a wrapping function in glibc an ...of both of the above commands shows that IP forwarding is disabled on this system (i.e., the value of "0").
  3 KB (441 words) - 02:14, 14 January 2016
• AWS/EC2
  ** System Status Checks: These checks monitor the AWS systems required to use this in **: These checks do ''not'' validate that your operating system and applications are accepting traffic.
  16 KB (2,382 words) - 16:29, 7 April 2017
• Docker
  ...tem that contains everything it needs to run: code, runtime, system tools, system libraries – anything you can install on a server. This guarantees that it ...re that includes everything needed to run it: code, runtime, system tools, system libraries, settings. Available for both Linux and Windows based apps, conta
  48 KB (6,756 words) - 21:40, 3 March 2023
• Redis
  * Create a Redis systemd unit file: ...do vi /etc/systemd/system/redis.service # add the following lines to this file:
  6 KB (844 words) - 01:05, 24 September 2021
• NFS
  '''Network File System''' ('''NFS''') is a distributed file system protocol allowing a user on a client computer to access files over a comput
  2 KB (247 words) - 00:32, 16 August 2016
• Rancher
  * Update the <code>/etc/nginx/nginx.conf</code> file to look like the following: At the top of the <code>3-node-certificate.yml</code> file, configure your nodes that will be used for the cluster.
  41 KB (5,236 words) - 22:30, 20 August 2020
• Kubernetes
  ;Labels : Clients can attach key-value pairs to any object in the system (e.g., Pods or Nodes). These become the labels that identify them in the co kube-system Active 2h
  168 KB (22,699 words) - 17:26, 19 January 2024
• Terraform
  ...t is, you can keep your infrastructure change history in a version control system (e.g., [[git]]) $ terraform init -backend-config=FILE
  63 KB (8,361 words) - 23:51, 19 July 2022
• AWS/S3
  ** Note that the largest size file you can transfer to S3 using a PUT operation is 5 GB * Largest file size one can transfer to S3 using a PUT operation: 5 GB ([http://docs.aws.a
  16 KB (2,466 words) - 18:15, 7 April 2017
• Google Cloud Platform
  * Example: A file is uploaded to Cloud Storage (event), function executes in response to even ** Objects are immutable (turn on versioning for updating a "file" and keeping a history of changes)
  100 KB (12,852 words) - 00:23, 27 July 2021
• Big Data
  ** distributed file systems ** Distributed file systems (e.g., Hadoop Distributed File System (HDFS))
  53 KB (7,890 words) - 19:21, 23 March 2017
• Apache Spark
  ...eline by allowing pre-processing of data to model evaluation in one single system. ;Spark is ''not'' a data storage system
  47 KB (6,681 words) - 18:29, 27 November 2019
• Raspberry Pi
  * Store the following in your <code>~/.ssh/config</code> file: $ sudo cat /sys/devices/system/cpu/cpufreq/policy0/*
  9 KB (1,204 words) - 22:57, 24 September 2022
• OpenShift
  ** System (e.g., admins; <code>system:admin</code>, <code>system:master</code>) ** Service (e.g., <code>system:serviceaccount:project01:db_user</code>)
  7 KB (828 words) - 00:08, 30 August 2018
• Kubernetes/the-hard-way
  * Generate the CA configuration file, certificate, and private key: "O": "system:masters",
  71 KB (8,566 words) - 23:27, 9 August 2019
• Kubernetes/GKE
  ...nt. In this task, you create a canary deployment using this new deployment file. * Create the canary deployment based on the configuration file.
  140 KB (19,601 words) - 06:57, 9 September 2021
• Istio
  All Pods in the Control Plane are running in the <code>istio-system</code> namespace All other Pods running in your system will have Proxies injected into them (if enabled on a given namespace). The
  11 KB (1,410 words) - 21:29, 16 August 2021
• Dig
  ...is a network administration command-line tool for querying the Domain Name System (DNS). ...lt, dig uses the DNS servers defined in your <code>/etc/resolv.conf</code> file. If you would like to use a different DNS server to perform the query, spec
  17 KB (2,253 words) - 09:22, 21 September 2021
• Pulumi
  * Create a configuration file to store all variables: mode: System
  12 KB (1,530 words) - 19:11, 1 October 2021
• Procfs
  ...lly, it is mapped to a mount point named /proc at boot time. The proc file system acts as an interface to internal data structures about running processes in ...ses the proc file system to obtain its data, without using any specialized system calls.
  10 KB (1,571 words) - 22:24, 20 January 2022